Diff of the two buildlogs: -- --- b1/build.log 2025-09-04 00:24:53.382371919 +0000 +++ b2/build.log 2025-09-04 11:04:34.116520781 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Sep 3 06:59:27 -12 2025 -I: pbuilder-time-stamp: 1756925967 +I: Current time: Wed Oct 7 20:47:56 +14 2026 +I: pbuilder-time-stamp: 1791355676 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -35,53 +35,85 @@ dpkg-source: info: applying fix_python3_tests I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1209357/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Oct 7 06:48 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='f223ff8aaf634545b5178ed404d79dcf' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='1209357' - PS1='# ' - PS2='> ' + INVOCATION_ID=c0019d5a088a4629af04fa8ff6ebb26d + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=1090047 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.BFG4Bh4y/pbuilderrc_HcRH --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.BFG4Bh4y/b1 --logfile b1/build.log seqan2_2.4.0+dfsg-16.dsc' - SUDO_GID='110' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://46.16.76.132:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.BFG4Bh4y/pbuilderrc_nAiO --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.BFG4Bh4y/b2 --logfile b2/build.log seqan2_2.4.0+dfsg-16.dsc' + SUDO_GID=110 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://213.165.73.152:3128 I: uname -a - Linux ionos1-amd64 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1209357/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -219,7 +251,7 @@ Get: 84 http://deb.debian.org/debian forky/main amd64 libboost1.83-dev amd64 1.83.0-4.2 [10.6 MB] Get: 85 http://deb.debian.org/debian forky/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get: 86 http://deb.debian.org/debian forky/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] -Fetched 52.4 MB in 8s (6281 kB/s) +Fetched 52.4 MB in 7s (7223 kB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19897 files and directories currently installed.) @@ -515,8 +547,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Sep 3 19:01:02 UTC 2025. -Universal Time is now: Wed Sep 3 19:01:02 UTC 2025. +Local time is now: Wed Oct 7 06:50:38 UTC 2026. +Universal Time is now: Wed Oct 7 06:50:38 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... @@ -590,7 +622,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/seqan2-2.4.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../seqan2_2.4.0+dfsg-16_source.changes +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/seqan2-2.4.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../seqan2_2.4.0+dfsg-16_source.changes dpkg-buildpackage: info: source package seqan2 dpkg-buildpackage: info: source version 2.4.0+dfsg-16 dpkg-buildpackage: info: source distribution unstable @@ -4654,8 +4690,8 @@ apps/yara/CMakeLists.txt:188 (seqan_add_app_test) This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (15.7s) --- Generating done (1.7s) +-- Configuring done (78.9s) +-- Generating done (26.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -4697,7 +4733,7 @@ -- Selected repository dir: /build/reproducible-path/seqan2-2.4.0+dfsg -- Repository date not determined. -- Repository revision not determined. --- Configuring done (0.4s) +-- Configuring done (1.5s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -4720,30 +4756,24 @@ make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles/seqan_library.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/build -make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/seqan_library.dir/build'. make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Built target seqan_library -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/DependInfo.cmake "--color=" [ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o -MF CMakeFiles/mason_sim.dir/external_split_merge.cpp.o.d -o CMakeFiles/mason_sim.dir/external_split_merge.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/external_split_merge.cpp -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 0%] Built target seqan_library +[ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -MF CMakeFiles/mason_sim.dir/genomic_variants.cpp.o.d -o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -4834,8 +4864,8 @@ | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.cpp:35: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -4848,7 +4878,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -4945,6 +4975,79 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -4975,16 +5078,230 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ @@ -5042,14 +5359,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -5128,6 +5444,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_options.h:53, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -5174,6 +5499,32 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = GenomicInterval]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1502:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2) [with TValue = int; TCargo = GenomicInterval; TValue2 = int]' + 1502 | findIntervals(result, it.g, it.pm, query); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.cpp:718:18: required from here + 718 | findIntervals(intervals, svIntervalTree, svPos); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1441:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1441 | act_prop = property(pm, act_knot); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1453:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1453 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1475:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] + 1475 | next_prop = property(pm, targetVertex(it)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' + 288 | IntervalTreeNode(IntervalTreeNode const & other) : + | ^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -5251,197 +5602,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -5714,603 +5874,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -MF CMakeFiles/mason_sim.dir/genomic_variants.cpp.o.d -o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.cpp:35: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_options.h:53, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = GenomicInterval]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1502:18: required from 'void seqan::findIntervals(String&, const IntervalTree&, TValue2) [with TValue = int; TCargo = GenomicInterval; TValue2 = int]' - 1502 | findIntervals(result, it.g, it.pm, query); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.cpp:718:18: required from here - 718 | findIntervals(intervals, svIntervalTree, svPos); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1441:18: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1441 | act_prop = property(pm, act_knot); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1453:23: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1453 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1475:27: warning: implicitly-declared 'seqan::IntervalTreeNode, seqan::StorePointsOnly>& seqan::IntervalTreeNode, seqan::StorePointsOnly>::operator=(const seqan::IntervalTreeNode, seqan::StorePointsOnly>&)' is deprecated [-Wdeprecated-copy] - 1475 | next_prop = property(pm, targetVertex(it)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' - 288 | IntervalTreeNode(IntervalTreeNode const & other) : - | ^~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o -MF CMakeFiles/mason_sim.dir/mason_options.cpp.o.d -o CMakeFiles/mason_sim.dir/mason_options.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_options.cpp +[ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -MF CMakeFiles/mason_sim.dir/methylation_levels.cpp.o.d -o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -6407,171 +5974,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_options.h:53: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -[ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -MF CMakeFiles/mason_sim.dir/methylation_levels.cpp.o.d -o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -6655,6 +6057,14 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_options.h:53: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -6720,6 +6130,38 @@ 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -6761,6 +6203,45 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -6798,6 +6279,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -6994,6 +6482,57 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -7040,6 +6579,32 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: @@ -7118,192 +6683,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Built target pair_align_global_1111 -make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -MF CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d -o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp [ 0%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_454.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_454.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_454.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/sequencing.h:43, @@ -7384,13 +6766,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -7398,32 +6773,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_base.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -7441,31 +6792,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -7479,32 +6805,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/sequencing.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -7559,159 +6859,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, @@ -7734,44 +6881,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -8037,93 +7146,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_base.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -8212,6 +7234,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -8229,21 +7258,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -8257,6 +7271,84 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/sequencing.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -8817,6 +7909,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_illumina.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -8863,16 +7957,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_lcs -make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -MF CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o.d -o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -9021,456 +8105,6 @@ 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here - 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -MF CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d -o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/simulate_illumina.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/sequencing.h:43, @@ -10210,6 +8844,14 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/sequencing.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -10636,6 +9278,104 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -10661,6 +9401,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:512:23: required from 'typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' @@ -10687,6 +9435,157 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 151 | _host(_toPointer(host)), tmp_value() @@ -10712,23 +9611,199 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ [ 1%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -MF CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o.d -o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/vcf_materialization.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -11312,6 +10387,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 1%] Linking CXX static library libmason_sim.a cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -P CMakeFiles/mason_sim.dir/cmake_clean_target.cmake cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_sim.dir/link.txt --verbose=1 @@ -11319,18 +10409,18 @@ /usr/bin/ranlib libmason_sim.a make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 1%] Built target mason_sim -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -MF CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d -o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:37: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -11584,16 +10674,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_local -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -11607,21 +10687,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11647,21 +10727,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11685,21 +10765,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11723,21 +10803,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11761,21 +10841,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lcs.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::Lcs(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -11785,10 +10865,35 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_lcs +make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -MF CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o.d -o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:37: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -11965,6 +11070,16 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_global_1111 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -12055,21 +11170,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -12095,21 +11210,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -12133,21 +11248,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -12171,59 +11286,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -12233,46 +11310,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_0000 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -12386,6 +11423,44 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::Tag; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::Tag; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::Tag]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_local.cpp:41:20: required from here + 41 | pairAlignConfig(options, seqan::SmithWaterman(), seqan::Nothing()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -12453,16 +11528,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_0001 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -12553,16 +11618,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12593,16 +11658,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12631,16 +11696,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12669,16 +11734,54 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig<>; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig<>; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig<>]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -12693,6 +11796,56 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_global_0000 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_local +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -12819,35 +11972,228 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -12857,6 +12203,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -12911,6 +12283,121 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -12962,6 +12449,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -12988,6 +12513,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -13001,16 +12564,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13041,16 +12604,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13079,16 +12642,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13117,16 +12680,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13155,16 +12718,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13210,6 +12773,16 @@ 253 | TTarget target; | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_global_0001 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 1%] Built target pair_align_global_0010 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -13399,284 +12972,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_0011 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' - 86 | if (!open(inFile, fileName)) - | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' - 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' - 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' - 289 | _initAlignParams(options, sc, alg, spec); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' - 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here - 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -13803,6 +13098,83 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -13857,6 +13229,83 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -13883,6 +13332,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -13934,6 +13421,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -13947,16 +13472,54 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -13987,16 +13550,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14025,16 +13588,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14063,16 +13626,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14101,16 +13664,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14157,14 +13720,14 @@ | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 1%] Built target pair_align_global_0100 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -14435,16 +13998,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14475,16 +14038,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14513,16 +14076,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14551,16 +14114,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14575,6 +14138,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_global_0011 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -14589,16 +14162,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14613,16 +14186,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_0101 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -14893,16 +14456,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14933,16 +14496,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -14971,16 +14534,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15009,16 +14572,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15047,16 +14610,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15102,15 +14665,15 @@ 253 | TTarget target; | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_0110 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend +[ 2%] Built target pair_align_global_0101 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -15381,16 +14944,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15421,16 +14984,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15459,16 +15022,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15497,16 +15060,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15535,16 +15098,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15560,15 +15123,15 @@ 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_0111 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend +[ 2%] Built target pair_align_global_0110 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -15839,16 +15402,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15879,16 +15442,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15917,16 +15480,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15955,16 +15518,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -15993,16 +15556,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16048,15 +15611,15 @@ 253 | TTarget target; | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1000 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend +[ 2%] Built target pair_align_global_0111 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -16327,16 +15890,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16367,16 +15930,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16405,16 +15968,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16443,16 +16006,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16481,16 +16044,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16506,15 +16069,15 @@ 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1001 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend +[ 2%] Built target pair_align_global_1000 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -16785,16 +16348,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16825,16 +16388,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16863,16 +16426,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16901,16 +16464,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16939,16 +16502,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' 86 | if (!open(inFile, fileName)) | ~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' 289 | _initAlignParams(options, sc, alg, spec); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here @@ -16995,6 +16558,16 @@ | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 2%] Built target pair_align_global_1010 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target pair_align_global_1001 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/DependInfo.cmake "--color=" @@ -17137,6 +16710,263 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -17176,6 +17006,43 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -17183,6 +17050,46 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -17209,6 +17116,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -17260,6 +17205,82 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:86:14: required from 'bool _loadSequences(TSeqSet&, TNameSet&, const char*) [with TSeqSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TNameSet = seqan::StringSet > >]' + 86 | if (!open(inFile, fileName)) + | ~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:184:19: required from 'void pairwise_align(const TScore&, TSeqFile&, TMethod, TDiag, TDiag, bool, TOutfile&) [with TAlphabet = seqan::SimpleType; TAlignConfig = seqan::AlignConfig; TScore = seqan::Score, seqan::Tag > >; TSeqFile = std::__cxx11::basic_string; TMethod = seqan::Tag; TDiag = int; TOutfile = std::__cxx11::basic_string]' + 184 | _loadSequences(sequenceSet, sequenceNames, seqfile.c_str()); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:276:42: required from 'void _initAlignParams(const Options&, TScore&, const TAlgorithm&, TAlignSpec) [with TAlphabet = seqan::SimpleType; TScore = seqan::Score, seqan::Tag > >; TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig]' + 276 | pairwise_align(sc, seqfile, alg, low, high, banded, outfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:289:31: required from 'void _initScoreMatrix(const Options&, seqan::Dna5, const TAlgorithm&, const TAlignSpec&) [with TAlgorithm = seqan::Tag; TAlignSpec = seqan::AlignConfig; seqan::Dna5 = seqan::SimpleType]' + 289 | _initAlignParams(options, sc, alg, spec); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:364:52: required from 'void pairAlignConfig(const Options&, const TAlgorithm&, const TSpec&) [with TAlgorithm = seqan::Tag; TSpec = seqan::AlignConfig]' + 364 | if (options.alphabet == "dna") _initScoreMatrix(options, Dna5(), alg, spec); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:73:1: required from here + 68 | pairAlignConfig(options, NeedlemanWunsch(), config); \ + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -17451,8 +17472,38 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1011 +[ 2%] Built target pair_align_global_1100 make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/DependInfo.cmake "--color=" @@ -17559,6 +17610,16 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target pair_align_global_1011 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -17667,6 +17728,86 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -17692,6 +17833,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -17718,6 +17877,34 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -17795,21 +17982,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -17848,6 +18028,52 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -17886,6 +18112,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -17924,237 +18176,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1100 -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -MF CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o.d -o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_global.cpp:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:40: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -18397,6 +18418,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, + inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, + inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 2%] Built target pair_align_global_1101 make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/depend @@ -18538,21 +18589,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, - inlined from 'void seqan::read(Score >&, TSourceIter&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:155:9, - inlined from 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:183:9: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::loadScoreMatrix(Score >&, const char*) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -19748,6 +19784,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target pair_align_global_1110 +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -MF CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d -o CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -19759,33 +19805,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:1107:20, - inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/param_chooser.cpp:339:21: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 2%] Linking CXX executable ../../bin/param_chooser -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/param_chooser.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/param_chooser.dir/link.d CMakeFiles/param_chooser.dir/param_chooser.cpp.o -o ../../bin/param_chooser -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target param_chooser -make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -MF CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d -o CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/test_param_chooser.cpp:45: @@ -20049,8 +20068,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target pair_align_global_1110 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -20082,7 +20099,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 933 | public std::binary_function < TSAValue, TSAValue, bool > | ^~~~~~~~~~~~~~~ @@ -20101,8 +20117,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -20116,8 +20130,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -20155,7 +20167,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -20244,8 +20255,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 2%] Building CXX object apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -MF CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o.d -o CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/prepare_sam.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -20445,6 +20454,115 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:1107:20, + inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/param_chooser.cpp:339:21: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +[ 2%] Linking CXX executable ../../bin/test_funcs_param_chooser +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_funcs_param_chooser.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_funcs_param_chooser.dir/link.d CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -o ../../bin/test_funcs_param_chooser -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target test_funcs_param_chooser +make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -MF CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o.d -o CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/prepare_sam.cpp +[ 2%] Linking CXX executable ../../bin/param_chooser +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/param_chooser.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/param_chooser.dir/link.d CMakeFiles/param_chooser.dir/param_chooser.cpp.o -o ../../bin/param_chooser -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target param_chooser +make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Building CXX object apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -MF CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d -o CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_build_gold_standard.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -20529,29 +20647,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -20559,173 +20654,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser/../splazers/paramChooser.h:829:51: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::__cxx11::basic_stringstream; TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 2%] Linking CXX executable ../../bin/test_funcs_param_chooser -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_funcs_param_chooser.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_funcs_param_chooser.dir/link.d CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -o ../../bin/test_funcs_param_chooser -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Built target test_funcs_param_chooser -make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 2%] Building CXX object apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -MF CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d -o CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_build_gold_standard.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -20821,6 +20749,36 @@ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_build_gold_standard.cpp:36: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -20849,27 +20807,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/rabema_build_gold_standard.cpp:39: @@ -20930,6 +20867,33 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, InfixSegment>]': @@ -20962,6 +20926,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String]' 143 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_endDefault(T&, Rooted) [with T = Segment, InfixSegment>; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:512:23: required from 'typename seqan::Iterator >::Type seqan::end(T&, Tag) [with T = Segment, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, InfixSegment>, AdaptorIterator > >]' @@ -21001,6 +20990,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::InfixSegment>; TIterator = WeightedMatch*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -21208,6 +21223,48 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -21459,27 +21516,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 3%] Linking CXX executable ../../bin/rabema_prepare_sam cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_prepare_sam.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/rabema_prepare_sam.dir/link.d CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -o ../../bin/rabema_prepare_sam -lrt -lz -lbz2 @@ -21581,6 +21617,233 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -21588,6 +21851,30 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -21787,6 +22074,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 3%] Linking CXX executable ../../bin/rabema_build_gold_standard +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_build_gold_standard.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/rabema_build_gold_standard.dir/link.d CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -o ../../bin/rabema_build_gold_standard -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Built target rabema_build_gold_standard +make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Building CXX object apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o -MF CMakeFiles/rabema_do_search.dir/do_search.cpp.o.d -o CMakeFiles/rabema_do_search.dir/do_search.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/do_search.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:76: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_reverse.h: In instantiation of 'seqan::ModifiedString > seqan::reverseString(THost&) [with THost = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_begin.h:212:61: required from 'static void seqan::FindBeginImpl_ >::_findBeginInit(TPattern&, TNeedle&) [with TPattern = seqan::Pattern, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Myers >; TNeedle = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THasState = seqan::True]' @@ -21926,270 +22226,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 3%] Linking CXX executable ../../bin/rabema_build_gold_standard -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_build_gold_standard.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/rabema_build_gold_standard.dir/link.d CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -o ../../bin/rabema_build_gold_standard -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target rabema_build_gold_standard -make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Building CXX object apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o -MF CMakeFiles/rabema_do_search.dir/do_search.cpp.o.d -o CMakeFiles/rabema_do_search.dir/do_search.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/do_search.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/do_search.cpp:8: @@ -22358,27 +22394,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -22651,6 +22666,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 3%] Linking CXX executable ../../bin/rabema_do_search cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_do_search.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/rabema_do_search.dir/link.d CMakeFiles/rabema_do_search.dir/do_search.cpp.o -o ../../bin/rabema_do_search -lrt -lz -lbz2 @@ -22769,233 +22805,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -23011,30 +22820,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, @@ -24875,11 +24660,264 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 3%] Linking CXX executable ../../bin/rabema_evaluate cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema && /usr/bin/cmake -E cmake_link_script CMakeFiles/rabema_evaluate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/rabema_evaluate.dir/link.d CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -o ../../bin/rabema_evaluate -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Built target rabema_evaluate +[ 3%] Building CXX object apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o -MF CMakeFiles/razers.dir/param_tabs.cpp.o.d -o CMakeFiles/razers.dir/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/param_tabs.cpp make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/DependInfo.cmake "--color=" @@ -25061,6 +25099,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/razers.h:34, @@ -28975,17 +29024,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h: In instantiation of 'typename seqan::Parameter_::Type seqan::host(Finder&) [with THaystack = Segment, Alloc<> >, InfixSegment>; TSpec = Pigeonhole; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_pigeonhole.h:932:36: required from 'bool seqan::_firstNonRepeatRange(TFinder&, Pattern >&) [with TFinder = Finder, Alloc<> >, InfixSegment>, Pigeonhole >; TIndex = Index, Alloc<> >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Hamming_]' 932 | finder.endPos = length(host(finder)); @@ -33039,8 +33077,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 3%] Building CXX object apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o -MF CMakeFiles/razers.dir/param_tabs.cpp.o.d -o CMakeFiles/razers.dir/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/param_tabs.cpp [ 3%] Linking CXX executable ../../bin/razers cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/razers.dir/link.d CMakeFiles/razers.dir/razers.cpp.o CMakeFiles/razers.dir/param_tabs.cpp.o -o ../../bin/razers -lrt -lz -lbz2 @@ -33472,6 +33508,8 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/razers3_simulate_reads.dir/link.d CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -o ../../bin/razers3_simulate_reads -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Built target razers3_simulate_reads +[ 3%] Building CXX object apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -MF CMakeFiles/razers3.dir/param_tabs.cpp.o.d -o CMakeFiles/razers3.dir/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/param_tabs.cpp make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/DependInfo.cmake "--color=" @@ -34313,6 +34351,46 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:993:51, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1011:66, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1021:53, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -34501,46 +34579,6 @@ 117 | operator = (Segment const & source) | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:993:51, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1011:66, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1021:53, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/paramChooser.h:1286:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); @@ -35125,8 +35163,6 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/sak.dir/link.d CMakeFiles/sak.dir/sak.cpp.o -o ../../bin/sak -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Built target sak -[ 3%] Building CXX object apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o -MF CMakeFiles/razers3.dir/param_tabs.cpp.o.d -o CMakeFiles/razers3.dir/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/param_tabs.cpp make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake "--color=" @@ -37321,108 +37357,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment > >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String > >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 3%] Linking CXX executable ../../bin/razers3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/razers3.dir/link.d CMakeFiles/razers3.dir/razers.cpp.o CMakeFiles/razers3.dir/param_tabs.cpp.o -o ../../bin/razers3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target razers3 -make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Building CXX object apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin && /usr/bin/c++ -DSEARCHJOIN_HUGEDB=TRUE -DSEQAN_APP_VERSION=\"0.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o -MF CMakeFiles/s4_join.dir/join.cpp.o.d -o CMakeFiles/s4_join.dir/join.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/parallel/base.h:36, - from /usr/include/c++/14/parallel/algobase.h:40, - from /usr/include/c++/14/parallel/algorithm:36, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:48: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' 392 | return _beginDefault(me, tag_); @@ -37466,6 +37400,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +[ 3%] Linking CXX executable ../../bin/razers3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 && /usr/bin/cmake -E cmake_link_script CMakeFiles/razers3.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -37632,28 +37568,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:61: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -37695,44 +37609,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' @@ -38339,6 +38215,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/razers3.dir/link.d CMakeFiles/razers3.dir/razers.cpp.o CMakeFiles/razers3.dir/param_tabs.cpp.o -o ../../bin/razers3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -38527,6 +38405,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 3%] Built target razers3 +make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Building CXX object apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin && /usr/bin/c++ -DSEARCHJOIN_HUGEDB=TRUE -DSEQAN_APP_VERSION=\"0.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o -MF CMakeFiles/s4_join.dir/join.cpp.o.d -o CMakeFiles/s4_join.dir/join.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -39190,48 +39077,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -39379,55 +39224,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -39534,69 +39330,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -39679,95 +39412,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -39821,13 +39465,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, unsigned int>, unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, unsigned int>, unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -39881,133 +39518,532 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:355:10: required from 'void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]' - 355 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 264 | index(joiner); - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:319:37: required from here - 319 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Exact()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 764 | dbIndex.index = TIndex(db.text); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:142: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:344:10: required from 'void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' - 344 | build(dbFinder.dbIndex, dbFinder.db, Default()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 264 | index(joiner); - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:323:41: required from here - 323 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 764 | dbIndex.index = TIndex(db.text); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:374:15: required from 'void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' - 374 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:279:12: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 279 | prepare(joiner, db); - | ~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:323:41: required from here - 323 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:888:32: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 888 | dbIndex.index[seedSet] = TIndex(db.text); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:355:10: required from 'void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]' - 355 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 264 | index(joiner); - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:332:37: required from here - 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Exact()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 764 | dbIndex.index = TIndex(db.text); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:344:10: required from 'void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' - 344 | build(dbFinder.dbIndex, dbFinder.db, Default()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 264 | index(joiner); - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:336:41: required from here - 336 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 764 | dbIndex.index = TIndex(db.text); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:374:15: required from 'void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' - 374 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:279:12: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 279 | prepare(joiner, db); - | ~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:336:41: required from here - 336 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:888:32: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 888 | dbIndex.index[seedSet] = TIndex(db.text); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:355:10: required from 'void index(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]' - 355 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 264 | index(joiner); - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:357:37: required from here - 357 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Exact()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 764 | dbIndex.index = TIndex(db.text); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]' - 88 | Index(Index const & other) : - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:344:10: required from 'void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' - 344 | build(dbFinder.dbIndex, dbFinder.db, Default()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' - 264 | index(joiner); - | ~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:361:41: required from here - 361 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] - 764 | dbIndex.index = TIndex(db.text); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]' +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/parallel/base.h:36, + from /usr/include/c++/14/parallel/algobase.h:40, + from /usr/include/c++/14/parallel/algorithm:36, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:48: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:61: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:355:10: required from 'void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]' + 355 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 264 | index(joiner); + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:319:37: required from here + 319 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Exact()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 764 | dbIndex.index = TIndex(db.text); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:142: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:344:10: required from 'void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' + 344 | build(dbFinder.dbIndex, dbFinder.db, Default()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 264 | index(joiner); + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:323:41: required from here + 323 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 764 | dbIndex.index = TIndex(db.text); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:374:15: required from 'void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' + 374 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:279:12: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 279 | prepare(joiner, db); + | ~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:323:41: required from here + 323 | return runJoiner(options, TDbDna(), TDbDnaSaHuge(), Parallel()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:888:32: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 888 | dbIndex.index[seedSet] = TIndex(db.text); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:355:10: required from 'void index(DbFinder >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >]' + 355 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 264 | index(joiner); + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:332:37: required from here + 332 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Exact()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 764 | dbIndex.index = TIndex(db.text); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:344:10: required from 'void index(DbFinder&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' + 344 | build(dbFinder.dbIndex, dbFinder.db, Default()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 264 | index(joiner); + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:336:41: required from here + 336 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 764 | dbIndex.index = TIndex(db.text); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:374:15: required from 'void prepare(DbFinder&, Db&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer, seqan::Alloc > >, seqan::Owner > >, void>, Db, seqan::Alloc > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' + 374 | buildQuery(dbFinder.queryIndex, value(dbFinder.query), dbFinder.minSeedLength); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:279:12: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TIndex = seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 279 | prepare(joiner, db); + | ~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:336:41: required from here + 336 | return runJoiner(options, TDbDna(), TDbDnaSaSmall(), Parallel()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:888:32: warning: implicitly-declared 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 888 | dbIndex.index[seedSet] = TIndex(db.text); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index, seqan::Alloc > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet, seqan::Alloc > >, seqan::Owner > >; TSpec = seqan::Tag]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:355:10: required from 'void index(DbFinder >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >]' + 355 | build(dbFinder.dbIndex, dbFinder.db, seqan::Exact()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 264 | index(joiner); + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:357:37: required from here + 357 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Exact()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 764 | dbIndex.index = TIndex(db.text); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]' + 88 | Index(Index const & other) : + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void build(DbIndex, TDbIndexSpec>&, Db&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::IndexSa >; TDbIndexSpec = void; TDbSpec = void; TSpec = seqan::Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/finder.h:344:10: required from 'void index(DbFinder&) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TDbQuerySpec = void; TDelegate = Writer > >, seqan::Owner > >, void>, Db > >, seqan::Owner > >, void>, seqan::Tag >; TSpec = seqan::Tag]' + 344 | build(dbFinder.dbIndex, dbFinder.db, Default()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:264:10: required from 'int runJoiner(Options&, const TText&, const TIndex&, TSpec) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndex = seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >; TSpec = seqan::Tag]' + 264 | index(joiner); + | ~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/join.cpp:361:41: required from here + 361 | return runJoiner(options, TDbGeo(), TDbGeoSaHuge(), Parallel()); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h:764:19: warning: implicitly-declared 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >& seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >::operator=(const seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >&)' is deprecated [-Wdeprecated-copy] + 764 | dbIndex.index = TIndex(db.text); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index > >, seqan::Owner > >, seqan::IndexSa > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >, seqan::Owner > >; TSpec = seqan::Tag]' 88 | Index(Index const & other) : | ^~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/db.h: In instantiation of 'void buildQuery(DbIndex >, seqan::Tag >&, Db&, TSeedLength) [with TText = seqan::StringSet > >, seqan::Owner > >; TIndexSpec = seqan::Tag; TDbSpec = void; TSeedLength = unsigned int]': @@ -43221,8 +43257,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 3%] Linking CXX executable ../../bin/s4_join -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin && /usr/bin/cmake -E cmake_link_script CMakeFiles/s4_join.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -43255,6 +43289,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 3%] Linking CXX executable ../../bin/s4_join +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin && /usr/bin/cmake -E cmake_link_script CMakeFiles/s4_join.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/s4_join.dir/link.d CMakeFiles/s4_join.dir/join.cpp.o -o ../../bin/s4_join -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 3%] Built target s4_join @@ -46111,18 +46147,18 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 3%] Linking CXX executable ../../bin/seqan_tcoffee -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqan_tcoffee.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/seqan_tcoffee.dir/link.d CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -o ../../bin/seqan_tcoffee -lrt -lz -lbz2 +[ 4%] Linking CXX executable ../../bin/sgip +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip && /usr/bin/cmake -E cmake_link_script CMakeFiles/sgip.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/sgip.dir/link.d CMakeFiles/sgip.dir/sgip.cpp.o -o ../../bin/sgip -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Built target seqan_tcoffee +[ 4%] Built target sgip make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 3%] Building CXX object apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o +[ 4%] Building CXX object apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o -MF CMakeFiles/snp_store.dir/snp_store.cpp.o.d -o CMakeFiles/snp_store.dir/snp_store.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -46211,19 +46247,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 4%] Linking CXX executable ../../bin/sgip -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip && /usr/bin/cmake -E cmake_link_script CMakeFiles/sgip.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/sgip.dir/link.d CMakeFiles/sgip.dir/sgip.cpp.o -o ../../bin/sgip -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 4%] Built target sgip -make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 4%] Building CXX object apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o -MF CMakeFiles/splazers.dir/splazers.cpp.o.d -o CMakeFiles/splazers.dir/splazers.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -46241,6 +46264,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 4%] Linking CXX executable ../../bin/seqan_tcoffee +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee && /usr/bin/cmake -E cmake_link_script CMakeFiles/seqan_tcoffee.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -46254,6 +46279,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/seqan_tcoffee.dir/link.d CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -o ../../bin/seqan_tcoffee -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 4%] Built target seqan_tcoffee +make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 4%] Building CXX object apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o -MF CMakeFiles/splazers.dir/splazers.cpp.o.d -o CMakeFiles/splazers.dir/splazers.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:34: @@ -46718,55 +46754,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:53: -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:356:23: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 356 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:405:39: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 405 | struct LessPosLen : public ::std::binary_function < TPosLen, TPosLen, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:420:23: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 420 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:468:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 468 | struct LessId : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:481:37: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 481 | struct LessGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:504:40: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 504 | struct LessGPosEnd : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:523:42: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 523 | struct LessGPosEndOa : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:545:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 545 | struct HigherQ : public ::std::binary_function < TQual, TQual, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:28, @@ -46988,6 +46975,55 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:53: +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:356:23: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 356 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:405:39: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 405 | struct LessPosLen : public ::std::binary_function < TPosLen, TPosLen, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:420:23: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 420 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:468:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 468 | struct LessId : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:481:37: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 481 | struct LessGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:504:40: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 504 | struct LessGPosEnd : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:523:42: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 523 | struct LessGPosEndOa : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.h:545:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 545 | struct HigherQ : public ::std::binary_function < TQual, TQual, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -47140,6 +47176,57 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:676:44: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 676 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:704:47: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 704 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:730:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 730 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:748:41: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 748 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:770:45: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 770 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:51: +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/outputFormat.h:126:44: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 126 | struct LessGPosRNo : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers_matepairs.h:513:47: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 513 | struct LessPairErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:54, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:98, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -47212,13 +47299,54 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -47273,43 +47401,55 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:676:44: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 676 | struct LessRNoGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:704:47: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 704 | struct LessRNoGEndPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:730:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 730 | struct LessErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:748:41: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 748 | struct LessSplicedScore : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:770:45: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 770 | struct LessSplicedScoreGPos : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:51: -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/outputFormat.h:126:44: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 126 | struct LessGPosRNo : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h: In instantiation of 'seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_shortcuts.h:340:12: required from 'typename seqan::ReverseComplementString::Type seqan::reverseComplementString(const THost&) [with THost = Segment, Alloc<> >, InfixSegment>; typename ReverseComplementString::Type = ModifiedString, Alloc<> >, InfixSegment>, ModView > > >, Tag >]' + 340 | return TRevComp(host); + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/outputFormat.h:1591:40: required from 'void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet, Alloc<> >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]' + 1591 | file << reverseComplementString(reads[currReadNo]) << "\t*\t"; + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:281:14: required from 'int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]' + 281 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:717:23: required from here + 717 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); + | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h:140:13: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 140 | _host(std::forward(host)), + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' @@ -47361,6 +47501,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:604:11: required from here + 604 | if (!open(seqFile, fname) || atEnd(seqFile)) + | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:77:18: required from 'bool loadGenomes(TGenomeSet&, seqan::StringSet > >&, std::map >, TGenomeSetSize>&, TGenomeNames&) [with TGenomeSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TGenomeSetSize = long unsigned int; TGenomeNames = seqan::StringSet > >]' 77 | if (!open(seqFileIn, toCString(fileNameList[filecount]))) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -47477,164 +47642,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers_matepairs.h:513:47: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 513 | struct LessPairErrors : public ::std::binary_function < TReadMatch, TReadMatch, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:77:18: required from 'bool loadGenomes(TGenomeSet&, seqan::StringSet > >&, std::map >, TGenomeSetSize>&, TGenomeNames&) [with TGenomeSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TGenomeSetSize = long unsigned int; TGenomeNames = seqan::StringSet > >]' - 77 | if (!open(seqFileIn, toCString(fileNameList[filecount]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:670:56: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' - 670 | if(result == CALLSNPS_GENOME_FAILED || !loadGenomes(genomes, genomeFileNameList, gIdStringToIdNumMap, genomeNames)) - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:1412:28: required from here - 1412 | int result = detectSNPs(options); - | ~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h: In instantiation of 'seqan::ModifiedString::ModifiedString(THost_&&, typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type*) [with THost_ = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&; THost = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; TSpec = seqan::Tag; typename seqan::EnableIf::Type, typename seqan::RemoveReference::Type> >::Type = void; typename seqan::RemoveReference::Type = seqan::ModifiedString, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >; typename seqan::RemoveReference::Type = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_shortcuts.h:340:12: required from 'typename seqan::ReverseComplementString::Type seqan::reverseComplementString(const THost&) [with THost = Segment, Alloc<> >, InfixSegment>; typename ReverseComplementString::Type = ModifiedString, Alloc<> >, InfixSegment>, ModView > > >, Tag >]' - 340 | return TRevComp(host); - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/outputFormat.h:1591:40: required from 'void seqan::dumpMatches(TMatches&, const TGenomeNames&, StringSet > >&, std::map, unsigned int> >&, const TReads&, const TReadRegions&, TCounts&, const TReadNames&, CharString, CharString, RazerSOptions&) [with TMatches = String >; TGenomeNames = StringSet > >; TReads = StringSet, Alloc<> >, Owner > >; TReadRegions = String > > >; TReadNames = StringSet > >; TCounts = String >; TSpec = RazerSSpec<>; CharString = String >]' - 1591 | file << reverseComplementString(reads[currReadNo]) << "\t*\t"; - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:281:14: required from 'int mapReads(seqan::StringSet > >&, seqan::StringSet > >&, seqan::CharString&, seqan::RazerSOptions&) [with TSpec = seqan::RazerSSpec<>; seqan::CharString = seqan::String >]' - 281 | dumpMatches(matches, genomeNames, genomeFileNames, gnoToFileMap, readSet, readRegions, stats, readNames, readFileNames[0], errorPrbFileName, options); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/splazers.cpp:717:23: required from here - 717 | int result = mapReads(genomeFileNames, readFileNames, errorPrbFileName, options); - | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h:140:13: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 140 | _host(std::forward(host)), - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/razers.h:604:11: required from here - 604 | if (!open(seqFile, fname) || atEnd(seqFile)) - | ~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -48184,6 +48191,35 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:77:18: required from 'bool loadGenomes(TGenomeSet&, seqan::StringSet > >&, std::map >, TGenomeSetSize>&, TGenomeNames&) [with TGenomeSet = seqan::StringSet, seqan::Alloc<> >, seqan::Owner<> >; TGenomeSetSize = long unsigned int; TGenomeNames = seqan::StringSet > >]' + 77 | if (!open(seqFileIn, toCString(fileNameList[filecount]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:670:56: required from 'int detectSNPs(seqan::SNPCallingOptions&) [with TSpec = seqan::SNPCallingSpec<>]' + 670 | if(result == CALLSNPS_GENOME_FAILED || !loadGenomes(genomes, genomeFileNameList, gIdStringToIdNumMap, genomeNames)) + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/snp_store.cpp:1412:28: required from here + 1412 | int result = detectSNPs(options); + | ~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_swift.h: In instantiation of 'void seqan::_patternInit(Pattern >&, TFloat, TSize_) [with TIndex = Index, Alloc<> >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSize_ = int; TSpec = Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_swift.h:1929:21: required from 'bool seqan::find(Finder >&, Pattern >&, double, TSize) [with THaystack = Segment, Alloc<> >, InfixSegment>; TIndex = Index, Alloc<> >, InfixSegment>, Owner<> >, IndexQGram, OneGappedShape>, Tag > >; TSpec = Tag >; TSize = int]' 1929 | _patternInit(pattern, errorRate, minLength); @@ -78190,19 +78226,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 7%] Linking CXX executable ../../bin/test_align_simd_local_variable_length_sse4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_simd_local_variable_length_sse4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_simd_local_variable_length_sse4.dir/link.d CMakeFiles/test_align_simd_local_variable_length_sse4.dir/test_align_simd_local_variable_length.cpp.o -o ../../bin/test_align_simd_local_variable_length_sse4 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 7%] Built target test_align_simd_local_variable_length_sse4 -make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 7%] Building CXX object tests/align_extend/CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_extend/CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o -MF CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o.d -o CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend/test_align_extend.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Align, seqan::Alloc<> >, seqan::Tag >*; TParam = seqan::Align, seqan::Alloc<> >, seqan::Tag >]': @@ -78290,6 +78313,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/align_base.h:104:13: note: because 'seqan::Align, seqan::Alloc<> >, seqan::Tag >' has user-provided 'seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]' 104 | Align & operator=(Align const & other) | ^~~~~~~~ +[ 7%] Linking CXX executable ../../bin/test_align_simd_local_variable_length_sse4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_simd_local_variable_length_sse4.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_simd_local_variable_length_sse4.dir/link.d CMakeFiles/test_align_simd_local_variable_length_sse4.dir/test_align_simd_local_variable_length.cpp.o -o ../../bin/test_align_simd_local_variable_length_sse4 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 7%] Built target test_align_simd_local_variable_length_sse4 +make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 7%] Building CXX object tests/align_extend/CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_extend/CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o -MF CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o.d -o CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend/test_align_extend.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend/test_align_extend.cpp:38: @@ -80020,11 +80056,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 7%] Linking CXX executable ../../bin/test_align_parallel_data_structures -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_data_structures.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_data_structures.dir/link.d CMakeFiles/test_align_parallel_data_structures.dir/test_align_parallel_data_structures.cpp.o -o ../../bin/test_align_parallel_data_structures -lrt -lz -lbz2 +[ 7%] Linking CXX executable ../../bin/test_align_simd_local_variable_length_avx2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.d CMakeFiles/test_align_simd_local_variable_length_avx2.dir/test_align_simd_local_variable_length.cpp.o -o ../../bin/test_align_simd_local_variable_length_avx2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 7%] Built target test_align_parallel_data_structures +[ 7%] Built target test_align_simd_local_variable_length_avx2 make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/DependInfo.cmake "--color=" @@ -80033,6 +80069,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 7%] Building CXX object tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o -MF CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o.d -o CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel/test_align_parallel_algorithm.cpp +[ 7%] Linking CXX executable ../../bin/test_align_parallel_data_structures +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_data_structures.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_data_structures.dir/link.d CMakeFiles/test_align_parallel_data_structures.dir/test_align_parallel_data_structures.cpp.o -o ../../bin/test_align_parallel_data_structures -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 7%] Built target test_align_parallel_data_structures +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 7%] Building CXX object tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -MF CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o.d -o CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel/test_align_parallel_interface.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_parallel.h:58, @@ -80160,19 +80209,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 8%] Linking CXX executable ../../bin/test_align_parallel_algorithm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm.dir/link.d CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Built target test_align_parallel_algorithm -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Building CXX object tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -MF CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o.d -o CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel/test_align_parallel_interface.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -80299,11 +80335,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 8%] Linking CXX executable ../../bin/test_align_parallel_interface -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_interface.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_interface.dir/link.d CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -o ../../bin/test_align_parallel_interface -lrt -lz -lbz2 +[ 8%] Linking CXX executable ../../bin/test_align_parallel_algorithm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm.dir/link.d CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Built target test_align_parallel_interface +[ 8%] Built target test_align_parallel_algorithm make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/DependInfo.cmake "--color=" @@ -80438,11 +80474,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 8%] Linking CXX executable ../../bin/test_align_simd_local_variable_length_avx2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.d CMakeFiles/test_align_simd_local_variable_length_avx2.dir/test_align_simd_local_variable_length.cpp.o -o ../../bin/test_align_simd_local_variable_length_avx2 -lrt -lz -lbz2 +[ 8%] Linking CXX executable ../../bin/test_align_parallel_interface +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_interface.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_interface.dir/link.d CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o -o ../../bin/test_align_parallel_interface -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 8%] Built target test_align_simd_local_variable_length_avx2 +[ 8%] Built target test_align_parallel_interface make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/DependInfo.cmake "--color=" @@ -80963,19 +80999,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 9%] Linking CXX executable ../../bin/test_align_parallel_algorithm_avx2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.d CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm_avx2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Built target test_align_parallel_algorithm_avx2 -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Building CXX object tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o -MF CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d -o CMakeFiles/test_align_split.dir/test_align_split.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -81369,6 +81392,120 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile/add_to_profile.h: In instantiation of 'void seqan::addToProfile(String >&, String&, int, int) [with TChar = SimpleType; TValue = int; TSpec = void; TSpec2 = Alloc<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile/test_align_profile.cpp:145:17: required from 'void SEQAN_TEST_test_align_profile_add_to_profile() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 145 | addToProfile(profile, seq); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile/test_align_profile.cpp:353:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile/add_to_profile.h:130:9: warning: implicitly-declared 'constexpr seqan::Iter, int> > >, seqan::GapsIterator > >& seqan::Iter, int> > >, seqan::GapsIterator > >::operator=(const seqan::Iter, int> > >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 130 | itH = begin(gapsH, Standard()); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter, int> > >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, int> > >]' + 91 | Iter(Iter const & other) : + | ^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +[ 9%] Linking CXX executable ../../bin/test_align_parallel_algorithm_avx2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.d CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o -o ../../bin/test_align_parallel_algorithm_avx2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Built target test_align_parallel_algorithm_avx2 +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Building CXX object tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o -MF CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d -o CMakeFiles/test_align_split.dir/test_align_split.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split/test_align_split.cpp:38: @@ -81455,13 +81592,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -81501,100 +81631,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile/add_to_profile.h: In instantiation of 'void seqan::addToProfile(String >&, String&, int, int) [with TChar = SimpleType; TValue = int; TSpec = void; TSpec2 = Alloc<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile/test_align_profile.cpp:145:17: required from 'void SEQAN_TEST_test_align_profile_add_to_profile() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 145 | addToProfile(profile, seq); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile/test_align_profile.cpp:353:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile/add_to_profile.h:130:9: warning: implicitly-declared 'constexpr seqan::Iter, int> > >, seqan::GapsIterator > >& seqan::Iter, int> > >, seqan::GapsIterator > >::operator=(const seqan::Iter, int> > >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 130 | itH = begin(gapsH, Standard()); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter, int> > >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps, int> > >]' - 91 | Iter(Iter const & other) : - | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ [ 9%] Linking CXX executable ../../bin/test_align_profile cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_profile.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_profile.dir/link.d CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o -o ../../bin/test_align_profile -lrt -lz -lbz2 @@ -82056,21 +82092,36 @@ | ^~~~ [ 9%] Linking CXX executable ../../bin/test_align_split cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_align_split.dir/link.txt --verbose=1 +[ 9%] Linking CXX executable ../../bin/test_alignment_free +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_alignment_free.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_align_split.dir/link.d CMakeFiles/test_align_split.dir/test_align_split.cpp.o -o ../../bin/test_align_split -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 9%] Built target test_align_split make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_alignment_free.dir/link.d CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -o ../../bin/test_alignment_free -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Built target test_alignment_free make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/build +make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build [ 9%] Building CXX object tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -MF CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o.d -o CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Building CXX object tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -MF CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o.d -o CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:39: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.cpp:46: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -82083,7 +82134,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:38: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -82161,36 +82212,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.h: In instantiation of 'void seqan::SEQAN_TEST_test_string_list() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:79:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.h:513:38: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 513 | std::vector const & values = getOptionValues(parser, "string"); - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.h:513:62: note: the temporary was destroyed at the end of the full expression 'seqan::getOptionValues(parser, std::__cxx11::basic_string(((const char*)"string"), std::allocator()))' - 513 | std::vector const & values = getOptionValues(parser, "string"); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -[ 9%] Linking CXX executable ../../bin/test_alignment_free -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_alignment_free.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_alignment_free.dir/link.d CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o -o ../../bin/test_alignment_free -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Built target test_alignment_free -make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Building CXX object tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -MF CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o.d -o CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse_version_check.cpp:46: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:39: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -82203,7 +82228,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:44: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:38: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -82281,6 +82306,17 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.h: In instantiation of 'void seqan::SEQAN_TEST_test_string_list() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.cpp:79:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.h:513:38: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 513 | std::vector const & values = getOptionValues(parser, "string"); + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse/test_arg_parse.h:513:62: note: the temporary was destroyed at the end of the full expression 'seqan::getOptionValues(parser, std::__cxx11::basic_string(((const char*)"string"), std::allocator()))' + 513 | std::vector const & values = getOptionValues(parser, "string"); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_arg_parse_ctd_support() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); @@ -82424,10 +82460,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 9%] Linking CXX executable ../../bin/test_arg_parse -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_arg_parse.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_arg_parse.dir/link.d CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -o ../../bin/test_arg_parse -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bam_io/test_bam_io_context.h:41, @@ -82438,15 +82470,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 9%] Built target test_arg_parse -make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 9%] Building CXX object tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -MF CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d -o CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_exception.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -82614,8 +82637,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 9%] Linking CXX executable ../../bin/test_basic_exception -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_exception.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -82661,6 +82682,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 9%] Linking CXX executable ../../bin/test_arg_parse +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_arg_parse.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_arg_parse.dir/link.d CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o -o ../../bin/test_arg_parse -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Built target test_arg_parse +make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 9%] Building CXX object tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -MF CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d -o CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_exception.cpp +[ 9%] Linking CXX executable ../../bin/test_basic_exception +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_exception.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_exception.dir/link.d CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o -o ../../bin/test_basic_exception -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 9%] Built target test_basic_exception @@ -82685,6 +82721,41 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 9%] Building CXX object tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -MF CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o.d -o CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_fundamental.cpp +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 9%] Linking CXX executable ../../bin/test_basic_fundamental cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_fundamental.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_fundamental.dir/link.d CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o -o ../../bin/test_basic_fundamental -lrt -lz -lbz2 @@ -82698,10 +82769,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 9%] Building CXX object tests/basic/CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o -MF CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o.d -o CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_concept.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_concept.h:65, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:68, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_concept.cpp:37: @@ -82776,17 +82843,6 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_concept.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_concept.dir/link.d CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o -o ../../bin/test_basic_concept -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 9%] Built target test_basic_concept make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -82796,26 +82852,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 9%] Building CXX object tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o -MF CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o.d -o CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_alphabet.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 9%] Linking CXX executable ../../bin/test_basic_alphabet cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_alphabet.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_alphabet.dir/link.d CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o -o ../../bin/test_basic_alphabet -lrt -lz -lbz2 @@ -83207,13 +83243,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -MF CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o.d -o CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_smart_pointer.cpp -[ 11%] Linking CXX executable ../../bin/test_basic_smart_pointer -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_smart_pointer.dir/link.txt --verbose=1 [ 11%] Linking CXX executable ../../bin/test_bam_io cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_bam_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_smart_pointer.dir/link.d CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -o ../../bin/test_basic_smart_pointer -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_bam_io.dir/link.d CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o -o ../../bin/test_bam_io -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_basic_smart_pointer +[ 11%] Built target test_bam_io make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/DependInfo.cmake "--color=" @@ -83222,9 +83256,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -MF CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o.d -o CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_container.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_bam_io.dir/link.d CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o -o ../../bin/test_bam_io -lrt -lz -lbz2 +[ 11%] Linking CXX executable ../../bin/test_basic_container +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_container.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_container.dir/link.d CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -o ../../bin/test_basic_container -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_bam_io +[ 11%] Built target test_basic_container make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/DependInfo.cmake "--color=" @@ -83233,11 +83269,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 11%] Building CXX object tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o -MF CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o.d -o CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic/test_basic_proxy.cpp -[ 11%] Linking CXX executable ../../bin/test_basic_container -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_container.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_container.dir/link.d CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o -o ../../bin/test_basic_container -lrt -lz -lbz2 +[ 11%] Linking CXX executable ../../bin/test_basic_smart_pointer +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_smart_pointer.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_smart_pointer.dir/link.d CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o -o ../../bin/test_basic_smart_pointer -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 11%] Built target test_basic_container +[ 11%] Built target test_basic_smart_pointer make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/DependInfo.cmake "--color=" @@ -83458,17 +83494,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/blast/test_blast.cpp:41: @@ -83562,6 +83587,17 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -84020,10 +84056,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:45, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus/test_consensus.h:40: @@ -84115,6 +84147,10 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 88 | public std::unary_function, bool> @@ -84422,57 +84458,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = Segment, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::Segment, seqan::InfixSegment>]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = std::__cxx11::basic_string]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = std::__cxx11::basic_string]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -84653,6 +84638,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = std::__cxx11::basic_string]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -84703,6 +84699,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = std::__cxx11::basic_string]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = unsigned int; TTag = Standard_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -85319,6 +85325,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = Segment, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::Segment, seqan::InfixSegment>]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = std::__cxx11::basic_string]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = std::__cxx11::basic_string]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -85735,10 +85771,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_consensus_realign_one_contig_small() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] @@ -85770,6 +85802,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_consensus_realign_one_contig_small() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -86453,8 +86489,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 12%] Linking CXX executable ../../bin/test_consensus -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_consensus.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = unsigned int; TTag = Standard_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -86636,15 +86670,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_consensus.dir/link.d CMakeFiles/test_consensus.dir/test_consensus.cpp.o -o ../../bin/test_consensus -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 12%] Built target test_consensus -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 12%] Linking CXX executable ../../bin/test_consensus +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_consensus.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:46: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String > > > >; TValue = long unsigned int; TCargo = Pair >]': @@ -86687,13 +86714,22 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > > >' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' 288 | IntervalTreeNode(IntervalTreeNode const & other) : | ^~~~~~~~~~~~~~~~ -[ 12%] Building CXX object tests/find/CMakeFiles/test_find.dir/test_find.cpp.o /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1701:27: warning: implicitly-declared 'seqan::IntervalTreeNode > > >& seqan::IntervalTreeNode > > >::operator=(const seqan::IntervalTreeNode > > >&)' is deprecated [-Wdeprecated-copy] 1701 | next_prop = property(pm, targetVertex(it)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > > >' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' 288 | IntervalTreeNode(IntervalTreeNode const & other) : | ^~~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_consensus.dir/link.d CMakeFiles/test_consensus.dir/test_consensus.cpp.o -o ../../bin/test_consensus -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 12%] Built target test_consensus +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 12%] Building CXX object tests/find/CMakeFiles/test_find.dir/test_find.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/find/CMakeFiles/test_find.dir/test_find.cpp.o -MF CMakeFiles/test_find.dir/test_find.cpp.o.d -o CMakeFiles/test_find.dir/test_find.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find/test_find.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' @@ -89103,11 +89139,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 13%] Linking CXX executable ../../bin/test_find -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find.dir/link.d CMakeFiles/test_find.dir/test_find.cpp.o -o ../../bin/test_find -lrt -lz -lbz2 +[ 13%] Linking CXX executable ../../bin/test_graph_algorithms +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_algorithms.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_algorithms.dir/link.d CMakeFiles/test_graph_algorithms.dir/test_graph_algorithms.cpp.o -o ../../bin/test_graph_algorithms -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 13%] Built target test_find +[ 13%] Built target test_graph_algorithms make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/DependInfo.cmake "--color=" @@ -89825,18 +89861,18 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 15%] Linking CXX executable ../../bin/test_graph_algorithms -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_algorithms.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_algorithms.dir/link.d CMakeFiles/test_graph_algorithms.dir/test_graph_algorithms.cpp.o -o ../../bin/test_graph_algorithms -lrt -lz -lbz2 +[ 13%] Linking CXX executable ../../bin/test_graph_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_align.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_align.dir/link.d CMakeFiles/test_graph_align.dir/test_graph_align.cpp.o -o ../../bin/test_graph_align -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_graph_algorithms +[ 13%] Built target test_graph_align make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Building CXX object tests/graph_msa/CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o +[ 13%] Building CXX object tests/graph_msa/CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/graph_msa/CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o -MF CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o.d -o CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_msa/test_graph_msa.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -90038,18 +90074,18 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 15%] Linking CXX executable ../../bin/test_graph_align -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_align.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_align.dir/link.d CMakeFiles/test_graph_align.dir/test_graph_align.cpp.o -o ../../bin/test_graph_align -lrt -lz -lbz2 +[ 13%] Linking CXX executable ../../bin/test_graph_msa +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_msa.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_msa.dir/link.d CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o -o ../../bin/test_graph_msa -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_graph_align +[ 13%] Built target test_graph_msa make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o +[ 13%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o -MF CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o.d -o CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types/test_graph_types_property_map.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -90146,18 +90182,18 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 15%] Linking CXX executable ../../bin/test_graph_types_property_map +[ 13%] Linking CXX executable ../../bin/test_graph_types_property_map cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_property_map.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_property_map.dir/link.d CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o -o ../../bin/test_graph_types_property_map -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_graph_types_property_map +[ 13%] Built target test_graph_types_property_map make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o +[ 13%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/graph_types/CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o -MF CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o.d -o CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types/test_graph_types_derived.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -90313,18 +90349,18 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = char*]' 129 | operator = (Segment const & source) | ^~~~~~~~ -[ 15%] Linking CXX executable ../../bin/test_graph_types_derived +[ 13%] Linking CXX executable ../../bin/test_graph_types_derived cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_derived.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_derived.dir/link.d CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o -o ../../bin/test_graph_types_derived -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_graph_types_derived +[ 13%] Built target test_graph_types_derived make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o +[ 13%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o -MF CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o.d -o CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types/test_graph_types_iterators.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -90421,18 +90457,18 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 15%] Linking CXX executable ../../bin/test_graph_msa -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_msa.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_msa.dir/link.d CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o -o ../../bin/test_graph_msa -lrt -lz -lbz2 +[ 13%] Linking CXX executable ../../bin/test_graph_types_iterators +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_iterators.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_iterators.dir/link.d CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o -o ../../bin/test_graph_types_iterators -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_graph_msa +[ 13%] Built target test_graph_types_iterators make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o +[ 13%] Building CXX object tests/graph_types/CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/graph_types/CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o -MF CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o.d -o CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types/test_graph_types_types.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -90529,11 +90565,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 15%] Linking CXX executable ../../bin/test_graph_types_iterators -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_iterators.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_iterators.dir/link.d CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o -o ../../bin/test_graph_types_iterators -lrt -lz -lbz2 +[ 15%] Linking CXX executable ../../bin/test_graph_types_types +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_types.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_types.dir/link.d CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o -o ../../bin/test_graph_types_types -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 15%] Built target test_graph_types_iterators +[ 15%] Built target test_graph_types_types make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/DependInfo.cmake "--color=" @@ -90795,19 +90831,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 16%] Linking CXX executable ../../bin/test_graph_types_types -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_graph_types_types.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_graph_types_types.dir/link.d CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o -o ../../bin/test_graph_types_types -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 16%] Built target test_graph_types_types -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 16%] Building CXX object tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -MF CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d -o CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -91172,166 +91195,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:39: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_creation.cpp:46: /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:301:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 301 | struct IdentityMap : public std::unary_function< TValue, TValue > { @@ -91345,22 +91215,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -91387,32 +91241,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc<> >, Tag > >; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = ModifiedString, Alloc<> >, Tag >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' @@ -91453,68 +91281,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -91540,118 +91306,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, Tag > >; TSpec = TopDown<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, Tag > >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -91674,19 +91328,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, FunctorConvert, char> > >; TSpec = TopDown<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, FunctorConvert, char> > >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -91709,216 +91350,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1492 | clear(it); // start in root node with range (0,infty) - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = PreorderEmptyEdges; THideEmptyEdges = False]' - 2259 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >; TTraits = PreorderEmptyEdges]' - 1660 | goNextImpl(it, traits); - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' - 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:73:15: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 73 | goNext(iter1); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2310:26: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = PostorderEmptyEdges; THideEmptyEdges = False]' - 2310 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >; TTraits = PostorderEmptyEdges]' - 1660 | goNextImpl(it, traits); - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' - 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:73:15: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 73 | goNext(iter1); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:88:65: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 88 | crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' - 945 | std::cerr << file << ":" << line << " Assertion failed : " - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 946 | << expression1 << " == " << expression2 << " was: " << value1 - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -92077,52 +91508,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -92532,373 +91917,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' - 633 | else handler2->end(); - | ~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 904 | writer->end(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 786 | endWrite(); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:218:12: required from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' - 218 | struct Pipe< TInput, Multi > - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:173:37: required from 'void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]' - 173 | _createSuffixArrayPipelining(sa, s, Skew7()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 534 | *cb->cur = pool.undefinedValue; - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:98: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:414:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 414 | if (r >= 6) push(out6, o6); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:415:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 415 | if (r >= 5) push(out5, o5); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:432:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 432 | if (r >= 3) push(out3, o3); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:443:21: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 443 | push(out0, o0); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' - 633 | else handler2->end(); - | ~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 904 | writer->end(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 786 | endWrite(); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:243:12: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 243 | struct Pipe< TInput, Skew7 > - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 534 | *cb->cur = pool.undefinedValue; - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' - 622 | if (handler1) handler1->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 416 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 311 | buffer[pool.handlerArgs(Val_)] = Val_; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' - 623 | else handler2->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 416 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 517 | *cb.cur = item; - | ~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -92936,293 +91954,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:161:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 161 | if (r >= 6) push(out6, o6); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:162:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 162 | if (r >= 5) push(out5, o5); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:179:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 179 | if (r >= 3) push(out3, o3); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:190:17: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 190 | push(out0, o0); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' - 633 | else handler2->end(); - | ~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 904 | writer->end(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 786 | endWrite(); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:173:12: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 173 | struct Pipe< TInput, Skew3 > - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 534 | *cb->cur = pool.undefinedValue; - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' - 622 | if (handler1) handler1->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 163 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 311 | buffer[pool.handlerArgs(Val_)] = Val_; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' - 623 | else handler2->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 163 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 517 | *cb.cur = item; - | ~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -93447,100 +92178,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:123:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 123 | push(out0, o0); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 218 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:376:49: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:447:21: required from 'void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]' - 447 | ++in.in5; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:465:13: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 202 | *refNext = *I; - | ~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 203 | *I = *refPrev; - | ~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 243 | *cur = *refPrev; - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -93673,88 +92310,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' - 622 | if (handler1) handler1->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 101 | push(out12, o2); - | ~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 311 | buffer[pool.handlerArgs(Val_)] = Val_; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' - 623 | else handler2->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 101 | push(out12, o2); - | ~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 517 | *cb.cur = item; - | ~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -93793,59 +92348,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, 6, seqan::Tag >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::Tag >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:302:21: required from 'void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' - 302 | ++in.in5; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:320:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 202 | *refNext = *I; - | ~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 203 | *I = *refPrev; - | ~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 243 | *cur = *refPrev; - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -93922,59 +92424,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger3.h:111:17: required from 'seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' - 111 | ++in.in2; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:329:13: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' - 349 | TBase(_index) {} - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' - 65 | typename Iterator::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 196 | crossIndicesChar, IndexWotd<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 202 | *refNext = *I; - | ~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 203 | *I = *refPrev; - | ~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 243 | *cur = *refPrev; - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -94730,6 +93179,37 @@ 82 | inline Triple(Triple const &_p) | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: +In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:203:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 203 | outRef->i2.i[skipped++] = 0; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ +In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:182:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 182 | outRef->i2.i[skipped++] = *in; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testIndexCreation() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, @@ -94738,16 +93218,28 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] 470 | outRef->i2.i[skipped++] = 0; | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 141 | typename StoredTupleValue_::Type i[SIZE]; | ^ -[ 16%] Linking CXX executable ../../bin/test_index_crosscompare_char -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_crosscompare_char.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_crosscompare_char.dir/link.d CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -o ../../bin/test_index_crosscompare_char -lrt -lz -lbz2 +[ 16%] Linking CXX executable ../../bin/test_find +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find.dir/link.d CMakeFiles/test_find.dir/test_find.cpp.o -o ../../bin/test_find -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 16%] Built target test_find +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 16%] Building CXX object tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -MF CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d -o CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp +[ 16%] Linking CXX executable ../../bin/test_index_creation +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_creation.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_creation.dir/link.d CMakeFiles/test_index_creation.dir/test_index_creation.cpp.o -o ../../bin/test_index_creation -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 16%] Built target test_index_crosscompare_char +[ 16%] Built target test_index_creation make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/DependInfo.cmake "--color=" @@ -94761,7 +93253,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:42: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:42: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -94774,7 +93266,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:39: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:39: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -95159,125 +93651,12 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' - 945 | std::cerr << file << ":" << line << " Assertion failed : " - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 946 | << expression1 << " == " << expression2 << " was: " << value1 - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexWotd<> >; TIndex2 = Index > >, IndexWotd > >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:203:54: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareCharDfi() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 203 | crossIndicesChar, IndexWotd > >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:50:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexWotd<> >; TIndex2 = Index > >, IndexWotd > >]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >; TText = StringSet > >]' - 87 | */ crossBottomUp< TopDown > > (index1, index2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >]' - 129 | crossIndex (t); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:203:54: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareCharDfi() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 203 | crossIndicesChar, IndexWotd > >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:50:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -[ 16%] Linking CXX executable ../../bin/test_index_crosscompare_char_dfi -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_crosscompare_char_dfi.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_crosscompare_char_dfi.dir/link.d CMakeFiles/test_index_crosscompare_char_dfi.dir/test_index_crosscompare_char_dfi.cpp.o -o ../../bin/test_index_crosscompare_char_dfi -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 16%] Built target test_index_crosscompare_char_dfi -make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Building CXX object tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o -MF CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o.d -o CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:42: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:42: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -95290,7 +93669,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:39: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:39: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -95425,6 +93804,195 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1492 | clear(it); // start in root node with range (0,infty) + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2259:22: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = PreorderEmptyEdges; THideEmptyEdges = False]' + 2259 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >; TTraits = PreorderEmptyEdges]' + 1660 | goNextImpl(it, traits); + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' + 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:73:15: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 73 | goNext(iter1); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2310:26: required from 'void seqan::goNextImpl(Iter > > >&, VSTreeIteratorTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = PostorderEmptyEdges; THideEmptyEdges = False]' + 2310 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1660:19: required from 'void seqan::goNext(Iter >&, TTraits) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >; TTraits = PostorderEmptyEdges]' + 1660 | goNextImpl(it, traits); + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1655:15: required from 'void seqan::goNext(Iter >&) [with TIndex = Index > >, IndexEsa<> >; TSpec = TopDown >]' + 1655 | goNext(it, typename GetVSTreeIteratorTraits< Iter > >::Type()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:73:15: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 73 | goNext(iter1); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:88:65: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 88 | crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' + 945 | std::cerr << file << ":" << line << " Assertion failed : " + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 946 | << expression1 << " == " << expression2 << " was: " << value1 + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -95467,6 +94035,52 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -95675,182 +94289,1634 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc<> > >, IndexEsa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Alloc<> > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' + 633 | else handler2->end(); + | ~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 904 | writer->end(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 786 | endWrite(); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:218:12: required from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' + 218 | struct Pipe< TInput, Multi > + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:173:37: required from 'void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]' + 173 | _createSuffixArrayPipelining(sa, s, Skew7()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' 349 | TBase(_index) {} | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:100:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Alloc<> >, Owner > >]' - 100 | typename Iterator, TopDown > >::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Alloc<>]' - 191 | crossSameIndex (t, t2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:215:51: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 215 | crossStringsDna, Alloc<>, Alloc<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here 1701 | SEQAN_TEST_ ## test_name(); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc<> >, Owner > >, IndexEsa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 534 | *cb->cur = pool.undefinedValue; + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:98: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:414:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 414 | if (r >= 6) push(out6, o6); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' 349 | TBase(_index) {} | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Alloc<> >, Owner > >]' - 101 | typename Iterator, TopDown > >::Type iter2(index2); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Alloc<>]' - 191 | crossSameIndex (t, t2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:215:51: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 215 | crossStringsDna, Alloc<>, Alloc<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here 1701 | SEQAN_TEST_ ## test_name(); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, Packed<> >, Owner > >, IndexEsa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Packed<> >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:415:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 415 | if (r >= 5) push(out5, o5); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' 349 | TBase(_index) {} | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Packed<> >, Owner > >]' - 101 | typename Iterator, TopDown > >::Type iter2(index2); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Packed<>]' - 191 | crossSameIndex (t, t2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:216:52: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 216 | crossStringsDna, Alloc<>, Packed<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here 1701 | SEQAN_TEST_ ## test_name(); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, External > >, Owner > >, IndexEsa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, External > >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::External > >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::External > >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:432:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 432 | if (r >= 3) push(out3, o3); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' 349 | TBase(_index) {} | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, External > >, Owner > >]' - 101 | typename Iterator, TopDown > >::Type iter2(index2); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = External >]' - 191 | crossSameIndex (t, t2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:217:54: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 217 | crossStringsDna, Alloc<>, External<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here 1701 | SEQAN_TEST_ ## test_name(); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, MMap<> >, Owner > >, IndexEsa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, MMap<> >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::MMap<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::MMap<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:443:21: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 443 | push(out0, o0); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' 349 | TBase(_index) {} | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, MMap<> >, Owner > >]' - 101 | typename Iterator, TopDown > >::Type iter2(index2); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = MMap<>]' - 191 | crossSameIndex (t, t2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:218:50: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 218 | crossStringsDna, Alloc<>, MMap<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here 1701 | SEQAN_TEST_ ## test_name(); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> > >, IndexEsa<> >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> > >, IndexEsa<> >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Alloc<> > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1492 | clear(it); // start in root node with range (0,infty) - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' + 633 | else handler2->end(); + | ~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 904 | writer->end(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 786 | endWrite(); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:243:12: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 243 | struct Pipe< TInput, Skew7 > + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' 349 | TBase(_index) {} | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:100:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Alloc<> >, Owner > >]' - 100 | typename Iterator, TopDown > >::Type iter1(index1); - | ^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Alloc<>]' - 191 | crossSameIndex (t, t2); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:215:51: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 215 | crossStringsDna, Alloc<>, Alloc<> >(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner > >, IndexEsa<> >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner > >, IndexEsa<> >; TSpec = TopDown<>]' - 2236 | _clear(it); +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 534 | *cb->cur = pool.undefinedValue; + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' + 622 | if (handler1) handler1->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 416 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 311 | buffer[pool.handlerArgs(Val_)] = Val_; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' + 623 | else handler2->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 416 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 517 | *cb.cur = item; + | ~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:161:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 161 | if (r >= 6) push(out6, o6); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:162:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 162 | if (r >= 5) push(out5, o5); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:179:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 179 | if (r >= 3) push(out3, o3); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:190:17: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 190 | push(out0, o0); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' + 633 | else handler2->end(); + | ~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 904 | writer->end(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 786 | endWrite(); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:173:12: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 173 | struct Pipe< TInput, Skew3 > + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 534 | *cb->cur = pool.undefinedValue; + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' + 622 | if (handler1) handler1->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 163 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 311 | buffer[pool.handlerArgs(Val_)] = Val_; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' + 623 | else handler2->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 163 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 517 | *cb.cur = item; + | ~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:123:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 123 | push(out0, o0); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 218 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:376:49: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:447:21: required from 'void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]' + 447 | ++in.in5; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:465:13: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 202 | *refNext = *I; + | ~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 203 | *I = *refPrev; + | ~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 243 | *cur = *refPrev; + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' + 622 | if (handler1) handler1->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 101 | push(out12, o2); + | ~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 311 | buffer[pool.handlerArgs(Val_)] = Val_; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' + 623 | else handler2->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 101 | push(out12, o2); + | ~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 517 | *cb.cur = item; + | ~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' + 945 | std::cerr << file << ":" << line << " Assertion failed : " + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 946 | << expression1 << " == " << expression2 << " was: " << value1 + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexWotd<> >; TIndex2 = Index > >, IndexWotd > >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:203:54: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareCharDfi() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 203 | crossIndicesChar, IndexWotd > >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:50:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:302:21: required from 'void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' + 302 | ++in.in5; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:320:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 202 | *refNext = *I; + | ~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 203 | *I = *refPrev; + | ~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 243 | *cur = *refPrev; + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::Segment >, seqan::InfixSegment>; T2 = seqan::Segment >, seqan::InfixSegment>]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:70:9: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexWotd<> >; TIndex2 = Index > >, IndexWotd > >]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexWotd<>; TIndexSpec2 = IndexWotd >]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:203:54: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareCharDfi() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 203 | crossIndicesChar, IndexWotd > >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char_dfi.cpp:50:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger3.h:111:17: required from 'seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' + 111 | ++in.in2; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:329:13: [ skipping 18 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:65:49: required from 'void seqan::crossBottomUp(TIndex1&, TIndex2&) [with TIterSpec = TopDown >; TIndex1 = Index > >, IndexEsa<> >; TIndex2 = Index > >, IndexWotd<> >]' + 65 | typename Iterator::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:87:66: required from 'void seqan::crossIndex(TText&) [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>; TText = StringSet > >]' + 87 | */ crossBottomUp< TopDown > > (index1, index2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:129:45: required from 'void seqan::crossIndicesChar() [with TIndexSpec1 = IndexEsa<>; TIndexSpec2 = IndexWotd<>]' + 129 | crossIndex (t); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:196:47: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareChar() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 196 | crossIndicesChar, IndexWotd<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_char.cpp:49:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 202 | *refNext = *I; + | ~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 203 | *I = *refPrev; + | ~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 243 | *cur = *refPrev; + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +[ 16%] Linking CXX executable ../../bin/test_index_crosscompare_char_dfi +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_crosscompare_char_dfi.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_crosscompare_char_dfi.dir/link.d CMakeFiles/test_index_crosscompare_char_dfi.dir/test_index_crosscompare_char_dfi.cpp.o -o ../../bin/test_index_crosscompare_char_dfi -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 16%] Built target test_index_crosscompare_char_dfi +make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Building CXX object tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o -MF CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o.d -o CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:39: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc<> > >, IndexEsa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Alloc<> > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:100:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Alloc<> >, Owner > >]' + 100 | typename Iterator, TopDown > >::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Alloc<>]' + 191 | crossSameIndex (t, t2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:215:51: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 215 | crossStringsDna, Alloc<>, Alloc<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, Alloc<> >, Owner > >, IndexEsa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Alloc<> >, Owner > >]' + 101 | typename Iterator, TopDown > >::Type iter2(index2); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Alloc<>]' + 191 | crossSameIndex (t, t2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:215:51: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 215 | crossStringsDna, Alloc<>, Alloc<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, Packed<> >, Owner > >, IndexEsa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Packed<> >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Packed<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Packed<> >, Owner > >]' + 101 | typename Iterator, TopDown > >::Type iter2(index2); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Packed<>]' + 191 | crossSameIndex (t, t2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:216:52: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 216 | crossStringsDna, Alloc<>, Packed<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, External > >, Owner > >, IndexEsa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, External > >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::External > >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::External > >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, External > >, Owner > >]' + 101 | typename Iterator, TopDown > >::Type iter2(index2); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = External >]' + 191 | crossSameIndex (t, t2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:217:54: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 217 | crossStringsDna, Alloc<>, External<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, MMap<> >, Owner > >, IndexEsa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, MMap<> >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::MMap<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::MMap<> >, seqan::Owner > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:101:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, MMap<> >, Owner > >]' + 101 | typename Iterator, TopDown > >::Type iter2(index2); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = MMap<>]' + 191 | crossSameIndex (t, t2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:218:50: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 218 | crossStringsDna, Alloc<>, MMap<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> > >, IndexEsa<> >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> > >, IndexEsa<> >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Alloc<> > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1492 | clear(it); // start in root node with range (0,infty) + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:349:25: required from 'seqan::Iter > > >::Iter(TIndex&) [with TIndex = seqan::Index, seqan::Alloc<> > >, seqan::IndexEsa<> >; TSpec = seqan::PreorderEmptyEdges]' + 349 | TBase(_index) {} + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:100:104: required from 'void seqan::crossSameIndex(TText1&, TText2&) [with TIndexSpec = IndexEsa<>; TText1 = StringSet, Alloc<> > >; TText2 = StringSet, Alloc<> >, Owner > >]' + 100 | typename Iterator, TopDown > >::Type iter1(index1); + | ^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:191:32: required from 'void seqan::crossStringsDna() [with TIndexSpec = IndexEsa<>; TStringSpec1 = Alloc<>; TStringSpec2 = Alloc<>]' + 191 | crossSameIndex (t, t2); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_crosscompare.h:215:51: required from 'void seqan::SEQAN_TEST_testIndexCrossCompareDnaStrings() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 215 | crossStringsDna, Alloc<>, Alloc<> >(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_crosscompare_dna.cpp:53:2: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner > >, IndexEsa<> >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index, Alloc<> >, Owner > >, IndexEsa<> >; TSpec = TopDown<>]' + 2236 | _clear(it); | ~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = StringSet, Alloc<> >, Owner > >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' 1492 | clear(it); // start in root node with range (0,infty) @@ -96747,32 +96813,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::MMap<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::MMap<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: -In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:203:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 203 | outRef->i2.i[skipped++] = 0; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ -In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; unsigned int m = 3; TPack = seqan::Tag]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tag >; TSpec = SorterSpec >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe >, Source<> >, Caster >, Sampler<3> >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:241:20: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:182:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 182 | outRef->i2.i[skipped++] = *in; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe >, seqan::Source<> >, seqan::Caster >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple >::i' of size 3 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -96816,12 +96856,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testIndexCreation() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple, 5, seqan::BitPacked<> >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' @@ -97310,6 +97344,20 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: +In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 470 | outRef->i2.i[skipped++] = 0; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -97715,23 +97763,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 470 | outRef->i2.i[skipped++] = 0; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ -[ 17%] Linking CXX executable ../../bin/test_index_creation -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_creation.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_creation.dir/link.d CMakeFiles/test_index_creation.dir/test_index_creation.cpp.o -o ../../bin/test_index_creation -lrt -lz -lbz2 +[ 17%] Linking CXX executable ../../bin/test_index_crosscompare_char +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_crosscompare_char.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_crosscompare_char.dir/link.d CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o -o ../../bin/test_index_crosscompare_char -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Built target test_index_creation +[ 17%] Built target test_index_crosscompare_char make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/DependInfo.cmake "--color=" @@ -98720,16 +98756,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:278:5: note: because 'seqan::Index >, seqan::IndexQGram > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::String >; TShapeSpec = seqan::UngappedShape<2>; TSpec = seqan::Tag]' 278 | Index(Index const &other): | ^~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:105:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ [ 17%] Linking CXX executable ../../bin/test_index_qgram cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_qgram.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_qgram.dir/link.d CMakeFiles/test_index_qgram.dir/test_index_qgram.cpp.o -o ../../bin/test_index_qgram -lrt -lz -lbz2 @@ -99433,11 +99459,28 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 17%] Linking CXX executable ../../bin/test_index_crosscompare_dna -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_crosscompare_dna.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_crosscompare_dna.dir/link.d CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o -o ../../bin/test_index_crosscompare_dna -lrt -lz -lbz2 +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:105:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String, Packed<> >; TSpec = Owner >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_sa_bwtwalk.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testBWTWalk() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 17%] Linking CXX executable ../../bin/test_index_sa_bwtwalk +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_sa_bwtwalk.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_sa_bwtwalk.dir/link.d CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o -o ../../bin/test_index_sa_bwtwalk -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Built target test_index_crosscompare_dna +[ 17%] Built target test_index_sa_bwtwalk make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/DependInfo.cmake "--color=" @@ -99446,6 +99489,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 17%] Building CXX object tests/index/CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o -MF CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o.d -o CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp +[ 17%] Linking CXX executable ../../bin/test_index_crosscompare_dna +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_crosscompare_dna.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_crosscompare_dna.dir/link.d CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o -o ../../bin/test_index_crosscompare_dna -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Built target test_index_crosscompare_dna +make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Building CXX object tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -MF CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o.d -o CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_drawing.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp:42: @@ -99540,6 +99596,155 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_drawing.cpp:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_drawing.cpp:33: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -99854,209 +100059,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:301:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 301 | struct IdentityMap : public std::unary_function< TValue, TValue > { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:306:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 306 | struct SimpleCompare : public std::binary_function< TValue const, TValue const, int > { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/cyclic_shape.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:68: -In copy constructor 'seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]', - inlined from 'void seqan::SEQAN_TEST_testShapes() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h:130:14: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/shape_gapped.h:285:26: warning: 'shapeB.seqan::Shape, seqan::GappedShape > >::hValue' may be used uninitialized [-Wmaybe-uninitialized] - 285 | hValue(other.hValue) {} - | ~~~~~~^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h: In function 'void seqan::SEQAN_TEST_testShapes() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h:129:30: note: 'shapeB' declared here - 129 | Shape shapeB(pattern); - | ^~~~~~ -[ 17%] Linking CXX executable ../../bin/test_index_shapes -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_shapes.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_shapes.dir/link.d CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o -o ../../bin/test_index_shapes -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Built target test_index_shapes -make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Building CXX object tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -MF CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o.d -o CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_drawing.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_sa_bwtwalk.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void seqan::SEQAN_TEST_testBWTWalk() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_drawing.cpp:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_drawing.cpp:33: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 17%] Linking CXX executable ../../bin/test_index_sa_bwtwalk -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_sa_bwtwalk.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -100066,12 +100068,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_sa_bwtwalk.dir/link.d CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o -o ../../bin/test_index_sa_bwtwalk -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Built target test_index_sa_bwtwalk -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -100079,11 +100075,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Building CXX object tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -MF CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d -o CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_rank_dictionary.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -100110,6 +100101,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -100311,6 +100309,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:301:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 301 | struct IdentityMap : public std::unary_function< TValue, TValue > { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:306:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 306 | struct SimpleCompare : public std::binary_function< TValue const, TValue const, int > { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -100501,6 +100512,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/cyclic_shape.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:68: +In copy constructor 'seqan::Shape > >::Shape(const seqan::Shape > >&) [with TValue = seqan::SimpleType]', + inlined from 'void seqan::SEQAN_TEST_testShapes() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h:130:14: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/shape_gapped.h:285:26: warning: 'shapeB.seqan::Shape, seqan::GappedShape > >::hValue' may be used uninitialized [-Wmaybe-uninitialized] + 285 | hValue(other.hValue) {} + | ~~~~~~^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_shapes.cpp:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h: In function 'void seqan::SEQAN_TEST_testShapes() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_shapes.h:129:30: note: 'shapeB' declared here + 129 | Shape shapeB(pattern); + | ^~~~~~ +[ 17%] Linking CXX executable ../../bin/test_index_shapes +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_shapes.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_shapes.dir/link.d CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o -o ../../bin/test_index_shapes -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Built target test_index_shapes +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Building CXX object tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -MF CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d -o CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_rank_dictionary.cpp +[ 17%] Linking CXX executable ../../bin/test_index_drawing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_drawing.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_drawing.dir/link.d CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -o ../../bin/test_index_drawing -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 17%] Built target test_index_drawing +make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 18%] Building CXX object tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o -MF CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o.d -o CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_sparse_string.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -100838,100 +100887,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 154 | public std::unary_function | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_rank_dictionary.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:301:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 301 | struct IdentityMap : public std::unary_function< TValue, TValue > { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:306:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 306 | struct SimpleCompare : public std::binary_function< TValue const, TValue const, int > { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 17%] Linking CXX executable ../../bin/test_index_drawing -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_drawing.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_drawing.dir/link.d CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o -o ../../bin/test_index_drawing -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 17%] Built target test_index_drawing -make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 18%] Building CXX object tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o -MF CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o.d -o CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_sparse_string.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -100940,6 +100895,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, @@ -100959,6 +100917,18 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 147 | struct FunctorConvert : public std::unary_function | ^~~~~~~~~~~~~~ @@ -101013,6 +100983,25 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -101020,6 +101009,33 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -101084,6 +101100,26 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_fm_rank_dictionary.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:301:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 301 | struct IdentityMap : public std::unary_function< TValue, TValue > { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_helpers.h:306:36: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 306 | struct SimpleCompare : public std::binary_function< TValue const, TValue const, int > { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -107154,22 +107190,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: -In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', - inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, - inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, - inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, - inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20, - inlined from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 470 | outRef->i2.i[skipped++] = 0; - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 - 141 | typename StoredTupleValue_::Type i[SIZE]; - | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -109818,6 +109838,22 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: +In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', + inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, + inlined from 'bool seqan::assign(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1369:42, + inlined from 'bool seqan::operator<<(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1376:22, + inlined from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:317:20, + inlined from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_sampler.h:470:49: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 470 | outRef->i2.i[skipped++] = 0; + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, External > >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 + 141 | typename StoredTupleValue_::Type i[SIZE]; + | ^ [ 18%] Linking CXX executable ../../bin/test_index_fm cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_fm.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_fm.dir/link.d CMakeFiles/test_index_fm.dir/test_index_fm.cpp.o -o ../../bin/test_index_fm -lrt -lz -lbz2 @@ -112664,11 +112700,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here 102 | data_iterator = TIterator(); | ^~~~~~~~~~~ -[ 18%] Linking CXX executable ../../bin/test_index_vstree -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_vstree.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_vstree.dir/link.d CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o -o ../../bin/test_index_vstree -lrt -lz -lbz2 +[ 18%] Linking CXX executable ../../bin/test_index_bifm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_bifm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_bifm.dir/link.d CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o -o ../../bin/test_index_bifm -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 18%] Built target test_index_vstree +[ 18%] Built target test_index_bifm make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/DependInfo.cmake "--color=" @@ -113074,6 +113110,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 18%] Linking CXX executable ../../bin/test_index_vstree +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_vstree.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -113081,6 +113119,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_vstree.dir/link.d CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o -o ../../bin/test_index_vstree -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 18%] Built target test_index_vstree +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 18%] Building CXX object tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -MF CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d -o CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:233: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_vstree_factory.h: In instantiation of 'typename seqan::View > > > > >::Type seqan::view(Factory > > > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder; typename View > > > > >::Type = Factory >, void>, IndexSa<> >, VSTree > > >, void>]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_view.h:62:37: required from 'void compareTreeIterators(TIndex&, TIndexView&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TIndexView = seqan::Index >, void>, seqan::IndexSa<> >]' @@ -113396,32 +113445,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 18%] Linking CXX executable ../../bin/test_index_bifm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_bifm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_bifm.dir/link.d CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o -o ../../bin/test_index_bifm -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 18%] Built target test_index_bifm -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 18%] Building CXX object tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -MF CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d -o CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp -[ 19%] Linking CXX executable ../../bin/test_index_view -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_view.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_view.dir/link.d CMakeFiles/test_index_view.dir/test_index_view.cpp.o -o ../../bin/test_index_view -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_index_view -make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o -MF CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o.d -o CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -113567,93 +113590,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:35: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -113663,13 +113599,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -113677,66 +113606,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_base.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -114016,15 +113885,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA, seqan::Alloc<> >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter const & other_) : | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h: In instantiation of 'void seqan::clear(Finder, TSpecFinder>&) [with TText = String, Packed<> >; TSpec = FMIndex<>; TSpecFinder = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:87:18: required from 'seqan::Finder, TSpecFinder>::Finder(TIndex&) [with TText = seqan::String, seqan::Packed<> >; TSpec = seqan::FMIndex<>; TSpecFinder = const seqan::Tag; TIndex = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]' 87 | clear(*this); @@ -114053,13 +113913,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Packed<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA, seqan::Packed<> >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter const & other_) : | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h: In instantiation of 'void seqan::clear(Finder, TSpecFinder>&) [with TText = String, Packed<> >; TSpec = FMIndex<>; TSpecFinder = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:87:18: required from 'seqan::Finder, TSpecFinder>::Finder(TIndex&) [with TText = seqan::String, seqan::Packed<> >; TSpec = seqan::FMIndex<>; TSpecFinder = const seqan::Tag; TIndex = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]' 87 | clear(*this); @@ -114331,13 +114184,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Packed<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA, seqan::Packed<> >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter const & other_) : | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h: In instantiation of 'bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = String, Packed<> >; TSpec = FMIndex<>; TSpecFinder = const Tag; TPattern = char [2]]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:75:5: required from 'void IndexFinderTest__FindFirstChar::runTest() [with SEQAN_TParam = seqan::Index, seqan::Packed<> >, seqan::FMIndex<> >]' 75 | SEQAN_ASSERT(find(this->finder, "A")); @@ -114361,13 +114207,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA, seqan::Alloc<> >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter const & other_) : | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h: In instantiation of 'bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = String, Alloc<> >; TSpec = FMIndex<>; TSpecFinder = const Tag; TPattern = Segment, Alloc<> >, PrefixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_finder.cpp:74:5: required from 'void IndexFinderTest__FindFirstChar::runTest() [with SEQAN_TParam = seqan::Index, seqan::Alloc<> >, seqan::FMIndex<> >]' 74 | SEQAN_ASSERT(find(this->finder, prefix(concat(this->text), 1u))); @@ -114390,18 +114229,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA, seqan::Alloc<> >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter const & other_) : | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:171: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h: In instantiation of 'void seqan::_findFirstIndex(Finder >, TSpecFinder>&, const TPattern&, FinderSTree) [with TText = StringSet > >; TSpec = void; TConfig = FMIndexConfig; TSpecFinder = const Tag; TPattern = char [7]; FinderSTree = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_index.h:275:28: required from 'bool seqan::find(Finder, TSpecFinder>&, const TPattern&) [with TText = StringSet > >; TSpec = FMIndex<>; TSpecFinder = const Tag; TPattern = char [7]]' @@ -115036,49 +114863,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA, seqan::Alloc<> >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter const & other_) : | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm.h:420:25: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] 420 | finder.range.i2 = saIt; | ~~~~~~~~~~~~~~~~^~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::Alloc<> >, void, seqan::FMIndexConfig >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = const seqan::CompressedSA, seqan::Alloc<> >, void, seqan::FMIndexConfig >]' 105 | Iter(Iter const & other_) : | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = std::vector >; TIndexSpec = void; TSpec = TopDown<>]' @@ -115099,12 +114889,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' 134 | VertexSA(VertexSA const & other) : | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index, IndexSa<> >; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = std::__cxx11::basic_string; TIndexSpec = void; TSpec = TopDown<>]' 311 | _historyClear(it); @@ -115123,12 +114907,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' 134 | VertexSA(VertexSA const & other) : | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]' 2236 | _clear(it); @@ -115292,158 +115070,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment > > >, seqan::PrefixSegment>; TIterator = seqan::Iter > >, seqan::ConcatVirtual<> >; TSpec = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_iterator.h:72:7: required from 'bool seqan::_goDownString(Iter >, VSTree > >&, const TString&, TSize&) [with TText = StringSet > >; TOccSpec = void; TIndexSpec = FMIndexConfig; TSpec = EmptyEdges; TString = ModifiedString > > >, PrefixSegment>, Tag >; TSize = long unsigned int]' @@ -115672,13 +115298,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment > > >, seqan::PrefixSegment>; TIterator = seqan::Iter > >, seqan::ConcatVirtual<> >; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment > > >, seqan::PrefixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> > > >, PrefixSegment>; typename Iterator >::Type = Iter, Alloc<> > > >, PrefixSegment>, AdaptorIterator, Alloc<> > >, ConcatVirtual<> >, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:520:23: required from 'typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> > > >, PrefixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> > > >, PrefixSegment>, AdaptorIterator, Alloc<> > >, ConcatVirtual<> >, Tag > >]' 520 | return _endDefault(me, tag_); @@ -116098,1100 +115717,173 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:88:5: note: because 'seqan::Index >, seqan::IndexSa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String >; TSpec = void]' 88 | Index(Index const & other) : | ^~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' - 311 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1348:19: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1348 | TTextIterator textIt(text); - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:142: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, IndexSa<> >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >; TIndexSpec = void; TSpec = TopDown<>]' - 311 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' - 312 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1348:19: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1348 | TTextIterator textIt(text); - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexSa<> >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexSa<> >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >; TIndexSpec = void; TSpec = TopDown<>]' - 312 | clear(it); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 212 | goRoot(*this); - | ~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:377:17: required from 'bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = String >; TIndexSpec = void; TSpec = Preorder; TDfsOrder = Preorder_]' - 377 | _historyPush(it); - | ~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1880:20: required from 'bool seqan::goDown(Iter > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder]' - 1880 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:527:18: required from 'bool seqan::_moveIteratorsDown(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' - 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:432:27: required from 'bool seqan::_pushState(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' - 432 | if (_moveIteratorsDown(finder, TStage())) - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1311:31: required from 'void seqan::_find(Finder_, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1311 | if (_pushState(finder, TStage())) - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1353:10: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1353 | _find(finder, delegate, StageInitial_()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:630:20: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 630 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >; TIndexSpec = void; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:377:17: required from 'bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >; TIndexSpec = void; TSpec = Preorder; TDfsOrder = Preorder_]' - 377 | _historyPush(it); - | ~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1880:20: required from 'bool seqan::goDown(Iter > >&) [with TIndex = Index > >, IndexSa<> >; TSpec = Preorder]' - 1880 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:527:52: required from 'bool seqan::_moveIteratorsDown(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' - 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:432:27: required from 'bool seqan::_pushState(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' - 432 | if (_moveIteratorsDown(finder, TStage())) - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1311:31: required from 'void seqan::_find(Finder_, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1311 | if (_pushState(finder, TStage())) - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1353:10: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1353 | _find(finder, delegate, StageInitial_()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:630:20: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] - 630 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' - 134 | VertexSA(VertexSA const & other) : - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' - 633 | else handler2->end(); - | ~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 904 | writer->end(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 786 | endWrite(); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:218:12: required from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' - 218 | struct Pipe< TInput, Multi > - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:173:37: required from 'void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]' - 173 | _createSuffixArrayPipelining(sa, s, Skew7()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 534 | *cb->cur = pool.undefinedValue; - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:98: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:414:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 414 | if (r >= 6) push(out6, o6); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:415:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 415 | if (r >= 5) push(out5, o5); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:432:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 432 | if (r >= 3) push(out3, o3); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:443:21: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 443 | push(out0, o0); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' - 633 | else handler2->end(); - | ~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 904 | writer->end(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 786 | endWrite(); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:243:12: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 243 | struct Pipe< TInput, Skew7 > - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' - 294 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 534 | *cb->cur = pool.undefinedValue; - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' - 622 | if (handler1) handler1->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 416 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 311 | buffer[pool.handlerArgs(Val_)] = Val_; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' - 623 | else handler2->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 416 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' - 350 | _skew7ExtendMulti( - | ~~~~~~~~~~~~~~~~~^ - 351 | textIn, limits, - | ~~~~~~~~~~~~~~~ - 352 | names_S1, names_S2, names_S4, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 517 | *cb.cur = item; - | ~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:161:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 161 | if (r >= 6) push(out6, o6); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:162:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 162 | if (r >= 5) push(out5, o5); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:179:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 179 | if (r >= 3) push(out3, o3); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:190:17: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 190 | push(out0, o0); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' - 633 | else handler2->end(); - | ~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 904 | writer->end(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 786 | endWrite(); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:173:12: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 173 | struct Pipe< TInput, Skew3 > - | ^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 312 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 534 | *cb->cur = pool.undefinedValue; - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' - 622 | if (handler1) handler1->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 163 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 311 | buffer[pool.handlerArgs(Val_)] = Val_; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' - 623 | else handler2->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 163 | if (r >= 4) push(out124, o4); - | ~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 517 | *cb.cur = item; - | ~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:123:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 123 | push(out0, o0); - | ~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 218 | process(_textIn); - | ~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:376:49: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 762 | *cur = Val_; - | ~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:447:21: required from 'void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]' - 447 | ++in.in5; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:465:13: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 202 | *refNext = *I; - | ~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 203 | *I = *refPrev; - | ~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 243 | *cur = *refPrev; - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' - 622 | if (handler1) handler1->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 101 | push(out12, o2); - | ~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 311 | buffer[pool.handlerArgs(Val_)] = Val_; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' - 623 | else handler2->push(Val_); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 881 | writer->push(Val_); - | ~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' - 1167 | me.push(Val_); - | ~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' - 101 | push(out12, o2); - | ~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' - 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 517 | *cb.cur = item; - | ~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:302:21: required from 'void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' - 302 | ++in.in5; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:320:13: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 202 | *refNext = *I; - | ~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 203 | *I = *refPrev; - | ~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 243 | *cur = *refPrev; - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger3.h:111:17: required from 'seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' - 111 | ++in.in2; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:329:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' - 726 | return indexCreate(index, fibre); // and create table - | ~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' - 195 | indexRequire(index, FibreSA()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' - 211 | _indexRequireTopDownIteration(_index); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' - 1349 | TPatternIterator patternIt(pattern); - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 210 | _find(finder, textIndex, patternIndex, 1, tester); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 202 | *refNext = *I; - | ~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 203 | *I = *refPrev; - | ~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] - 243 | *cur = *refPrev; - | ~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' - 82 | inline Triple(Triple const &_p) - | ^~~~~~ +[ 19%] Linking CXX executable ../../bin/test_index_view +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_view.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_view.dir/link.d CMakeFiles/test_index_view.dir/test_index_view.cpp.o -o ../../bin/test_index_view -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_index_view +make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o -MF CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o.d -o CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:35: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_base.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -119109,6 +117801,22 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -119189,6 +117897,240 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -119449,26 +118391,153 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 332 | return processBuffer(*chain.first, *this); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' - 556 | else return handler2->next(); - | ~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' - 744 | buffer = handler.next(); - | ~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' - 870 | reader->pop(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:302:21: required from 'void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' - 302 | ++in.in5; - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:320:13: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm_stree.h:183:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TOccSpec = void; TIndexSpec = FMIndexConfig]' - 183 | indexRequire(index, FibreSALF()); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' + 311 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1348:19: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1348 | TTextIterator textIt(text); + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:142: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >, IndexSa<> >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:311:18: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >; TIndexSpec = void; TSpec = TopDown<>]' + 311 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index >, IndexSa<> >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = String >; TIndexSpec = void; TSpec = TopDown<>]' + 312 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1348:19: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1348 | TTextIterator textIt(text); + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >, IndexSa<> >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >, IndexSa<> >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:312:10: required from 'void seqan::goRoot(Iter >, VSTree >&) [with TText = StringSet > >; TIndexSpec = void; TSpec = TopDown<>]' + 312 | clear(it); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:212:19: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 212 | goRoot(*this); + | ~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:377:17: required from 'bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = String >; TIndexSpec = void; TSpec = Preorder; TDfsOrder = Preorder_]' + 377 | _historyPush(it); + | ~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1880:20: required from 'bool seqan::goDown(Iter > >&) [with TIndex = Index >, IndexSa<> >; TSpec = Preorder]' + 1880 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:527:18: required from 'bool seqan::_moveIteratorsDown(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' + 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:432:27: required from 'bool seqan::_pushState(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' + 432 | if (_moveIteratorsDown(finder, TStage())) + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1311:31: required from 'void seqan::_find(Finder_, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1311 | if (_pushState(finder, TStage())) + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1353:10: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1353 | _find(finder, delegate, StageInitial_()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:630:20: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 630 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:302:21: required from 'void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' + 302 | ++in.in5; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:320:13: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_fm_stree.h:183:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TOccSpec = void; TIndexSpec = FMIndexConfig]' + 183 | indexRequire(index, FibreSALF()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::FMIndex<> >; TSpec = seqan::EmptyEdges]' 211 | _indexRequireTopDownIteration(_index); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ @@ -119501,6 +118570,37 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = StringSet > >; TIndexSpec = void; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:377:17: required from 'bool seqan::_goDown(Iter >, VSTree > >&, VSTreeIteratorTraits) [with TText = StringSet > >; TIndexSpec = void; TSpec = Preorder; TDfsOrder = Preorder_]' + 377 | _historyPush(it); + | ~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1880:20: required from 'bool seqan::goDown(Iter > >&) [with TIndex = Index > >, IndexSa<> >; TSpec = Preorder]' + 1880 | if (_goDown(it, typename GetVSTreeIteratorTraits< Iter > > >::Type())) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:527:52: required from 'bool seqan::_moveIteratorsDown(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' + 527 | return goDown(back(finder.textStack)) && goDown(back(finder.patternStack)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:432:27: required from 'bool seqan::_pushState(Finder_, Index, Backtracking >&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_]' + 432 | if (_moveIteratorsDown(finder, TStage())) + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1311:31: required from 'void seqan::_find(Finder_, Index, Backtracking >&, TDelegate&, const TStage&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TStage = StageInitial_; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1311 | if (_pushState(finder, TStage())) + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1353:10: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1353 | _find(finder, delegate, StageInitial_()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:630:20: warning: implicitly-declared 'constexpr seqan::VertexSA& seqan::VertexSA::operator=(const seqan::VertexSA&)' is deprecated [-Wdeprecated-copy] + 630 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:134:5: note: because 'seqan::VertexSA' has user-provided 'seqan::VertexSA::VertexSA(const seqan::VertexSA&) [with TSize = long unsigned int; TAlphabet = char]' + 134 | VertexSA(VertexSA const & other) : + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -119553,6 +118653,942 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' + 633 | else handler2->end(); + | ~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 904 | writer->end(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 786 | endWrite(); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:218:12: required from 'void seqan::_createSuffixArrayPipelining(TSA&, const StringSet&, TAlgSpec) [with TSA = String >, Alloc<> >; TString = String >; TSpec = Owner<>; TAlgSpec = Skew7]' + 218 | struct Pipe< TInput, Multi > + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:173:37: required from 'void seqan::_createSuffixArrayWrapper(TSA&, const StringSet&, const TAlgSpec&, True) [with TSA = String >, Alloc<> >; TSequence = String >; TSetSpec = Owner<>; TAlgSpec = Skew7]' + 173 | _createSuffixArrayPipelining(sa, s, Skew7()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:198:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 534 | *cb->cur = pool.undefinedValue; + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_aggregate.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:98: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:414:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 414 | if (r >= 6) push(out6, o6); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:415:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 415 | if (r >= 5) push(out5, o5); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:432:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 432 | if (r >= 3) push(out3, o3); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:443:21: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 443 | push(out0, o0); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' + 633 | else handler2->end(); + | ~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 904 | writer->end(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 786 | endWrite(); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:243:12: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 243 | struct Pipe< TInput, Skew7 > + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: required from 'seqan::Pipe >::Pipe(TInput&, const TLimitsString_&, typename seqan::EnableIf >::Type*) [with TLimitsString_ = seqan::String >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >; typename seqan::EnableIf >::Type = void]' + 294 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:107:22: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 534 | *cb->cur = pool.undefinedValue; + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' + 622 | if (handler1) handler1->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 416 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 311 | buffer[pool.handlerArgs(Val_)] = Val_; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >]' + 623 | else handler2->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TSpec = MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:416:33: required from 'bool seqan::_skew7ExtendMulti(TTextInput&, const TLimitsString&, TNameInput&, TNameInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe > > >, Source<> >, Caster >; TLimitsString = String >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool >, Tuple, Tuple >, Tag >, SorterSpec >, Tuple, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool >, Tuple, Tuple >, Tag >, MapperSpec >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 416 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:350:34: required from 'bool seqan::Pipe >::process(TInput_&) [with TInput_ = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; TPair_ = seqan::Pair >; TLimitsString = seqan::String >]' + 350 | _skew7ExtendMulti( + | ~~~~~~~~~~~~~~~~~^ + 351 | textIn, limits, + | ~~~~~~~~~~~~~~~ + 352 | names_S1, names_S2, names_S4, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 353 | sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:294:20: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 517 | *cb.cur = item; + | ~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:161:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 161 | if (r >= 6) push(out6, o6); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:162:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 162 | if (r >= 5) push(out5, o5); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:179:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 179 | if (r >= 3) push(out3, o3); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:190:17: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 190 | push(out0, o0); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' + 633 | else handler2->end(); + | ~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:904:28: required from 'bool seqan::Pool::endWrite() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 904 | writer->end(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:786:13: required from 'seqan::Pool::~Pool() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 786 | endWrite(); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:173:12: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 173 | struct Pipe< TInput, Skew3 > + | ^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 312 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:367:49: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:534:34: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 534 | *cb->cur = pool.undefinedValue; + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' + 622 | if (handler1) handler1->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 163 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 311 | buffer[pool.handlerArgs(Val_)] = Val_; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]' + 623 | else handler2->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple >, Tag >; TSpec = MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender7.h:163:29: required from 'bool seqan::_skew7Extend(TTextInput&, TNameInput&, TOut0&, TOut3&, TOut5&, TOut6&, TOut124&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 3, int>, long unsigned int, File > > > >; TOut3 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut5 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 1, int>, long unsigned int, File > > > >; TOut6 = Pool, Tuple >, Tag >, SorterSpec, Tuple >, Tag >, 2, int>, long unsigned int, File > > > >; TOut124 = Pool, Tuple >, Tag >, MapperSpec, Tuple >, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 163 | if (r >= 4) push(out124, o4); + | ~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:362:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 362 | _skew7Extend(textIn, names_linear, sortedS0, sortedS3, sortedS5, sortedS6, sortedS124); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:312:20: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 517 | *cb.cur = item; + | ~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:123:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 123 | push(out0, o0); + | ~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: required from 'seqan::Pipe::Pipe(TInput&) [with TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 218 | process(_textIn); + | ~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:376:49: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:762:18: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 762 | *cur = Val_; + | ~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:447:21: required from 'void seqan::Pipe, seqan::Merger7Multi >::insertStream(unsigned int) [with TInput0 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >; TLimitsString = seqan::String >]' + 447 | ++in.in5; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:465:13: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 202 | *refNext = *I; + | ~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 203 | *I = *refPrev; + | ~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >& seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 243 | *cur = *refPrev; + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' + 622 | if (handler1) handler1->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 101 | push(out12, o2); + | ~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 311 | buffer[pool.handlerArgs(Val_)] = Val_; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:623:43: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' + 623 | else handler2->push(Val_); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 881 | writer->push(Val_); + | ~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1167:16: required from 'void seqan::push(Pool&, const TValue&) [with TValue = Triple, Tuple, Tag >; TSpec = MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > >]' + 1167 | me.push(Val_); + | ~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pump_extender3.h:101:17: required from 'bool seqan::_skew3Extend(TTextInput&, TNameInput&, TOut0&, TOut12&) [with TTextInput = Pipe >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >, Filter >, long unsigned int> > >; TNameInput = Pool >, MapperSpec >, long unsigned int>, long unsigned int, File > > > >; TOut0 = Pool, Tuple, Tag >, SorterSpec, Tuple, Tag >, int>, long unsigned int, File > > > >; TOut12 = Pool, Tuple, Tag >, MapperSpec, Tuple, Tag >, long unsigned int>, long unsigned int, File > > > >]' + 101 | push(out12, o2); + | ~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:269:29: required from 'bool seqan::Pipe::process(TInput_&) [with TInput_ = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >; TInput = seqan::Pipe >, seqan::MapperSpec >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Filter >, long unsigned int> > >]' + 269 | _skew3Extend(textIn, names_linear, sortedS0, sortedS12); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:218:20: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:517:21: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 517 | *cb.cur = item; + | ~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:302:21: required from 'void seqan::Pipe, seqan::Merger7>::insertStream(unsigned int) [with TInput0 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 3, int>, long unsigned int, seqan::File > > > >; TInput3 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput5 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 1, int>, long unsigned int, seqan::File > > > >; TInput6 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >; TInput124 = seqan::Pool, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' + 302 | ++in.in5; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:320:13: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 202 | *refNext = *I; + | ~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 203 | *I = *refPrev; + | ~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple >, seqan::Tag >& seqan::Triple, seqan::Tuple >, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple >, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 243 | *cur = *refPrev; + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' + 332 | return processBuffer(*chain.first, *this); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:556:50: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer seqan::BufferHandler, seqan::Tag >::next() [with TBufferHandler1 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBufferHandler2 = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' + 556 | else return handler2->next(); + | ~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h:744:38: required from 'void seqan::Handler::pop() [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >]' + 744 | buffer = handler.next(); + | ~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:870:24: required from 'seqan::Pool& seqan::Pool::operator++() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >]' + 870 | reader->pop(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger3.h:111:17: required from 'seqan::Pipe, seqan::Merger3>& seqan::Pipe, seqan::Merger3>::operator++() [with TInput0 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >; TInput12 = seqan::Pool, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >]' + 111 | ++in.in2; + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:329:13: [ skipping 15 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:726:27: required from 'bool seqan::indexRequire(Index&, Tag) [with TText = StringSet > >; TSpec = IndexSa<>; TFibre = FibreSA_]' + 726 | return indexCreate(index, fibre); // and create table + | ~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_stree.h:195:17: required from 'void seqan::_indexRequireTopDownIteration(Index >&) [with TText = StringSet > >; TIndexSpec = void]' + 195 | indexRequire(index, FibreSA()); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:211:42: required from 'seqan::Iter > >::Iter(TIndex&) [with TIndex = seqan::Index > >, seqan::IndexSa<> >; TSpec = seqan::Preorder]' + 211 | _indexRequireTopDownIteration(_index); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find2_backtracking.h:1349:22: required from 'void seqan::_find(Finder_, Index, Backtracking >&, Index&, Index&, TValue, TDelegate&) [with TText = String >; TTextIndexSpec = IndexSa<>; TPattern = StringSet > >; TPatternIndexSpec = IndexSa<>; TDistance = Tag; TSpec = Tag; TValue = int; TDelegate = FinderTester >, IndexSa<> >, Index > >, IndexSa<> >, Backtracking > >]' + 1349 | TPatternIterator patternIt(pattern); + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.h:210:10: required from 'void SEQAN_TEST_test_find_backtracking_multiple_hamming_banana_vs_ada_ana() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 210 | _find(finder, textIndex, patternIndex, 1, tester); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_find_backtracking.cpp:45:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:202:30: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 202 | *refNext = *I; + | ~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:203:24: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 203 | *I = *refPrev; + | ~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:243:26: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] + 243 | *cur = *refPrev; + | ~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' + 82 | inline Triple(Triple const &_p) + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, @@ -120719,19 +120755,6 @@ /usr/include/c++/14/array:115:55: note: while referencing 'std::array::_M_elems' 115 | typename __array_traits<_Tp, _Nm>::_Type _M_elems; | ^~~~~~~~ -[ 19%] Linking CXX executable ../../bin/test_find2_index_approx -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find2_index_approx.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find2_index_approx.dir/link.d CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o -o ../../bin/test_find2_index_approx -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_find2_index_approx -make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -MF CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o.d -o CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_repeats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: In member function 'seqan::Pipe, TPair, TLimitsString> >& seqan::Pipe, TPair, TLimitsString> >::operator++() [with TInput = seqan::Pipe > > >, seqan::Source<> >, seqan::Caster >; unsigned int m = 7; TPack = seqan::Tag; TPair = seqan::Pair >; TLimitsString = seqan::String >]', inlined from 'bool seqan::append(Pool&, TSource&) [with TValue = Pair >, Tuple >, Tag >; TSpec = SorterSpec >, Tuple >, Tag >, int>, long unsigned int, File > > >; TSource = Pipe > > >, Source<> >, Caster >, Multi >, Pair >, String > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:1330:13, @@ -120748,6 +120771,39 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 7 into destination object 'seqan::Tuple >::i' of size 7 141 | typename StoredTupleValue_::Type i[SIZE]; | ^ +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', + inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, + inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here + 102 | data_iterator = TIterator(); + | ^~~~~~~~~~~ +[ 19%] Linking CXX executable ../../bin/test_find2_index_approx +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find2_index_approx.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find2_index_approx.dir/link.d CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o -o ../../bin/test_find2_index_approx -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_find2_index_approx +make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -MF CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o.d -o CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_repeats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -120901,16 +120957,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -121002,16 +121048,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In constructor 'seqan::Iter >::Iter() [with TContainer = const seqan::String, seqan::Packed<> >; TIterator = seqan::Iter, seqan::Packed<> >, seqan::Packed<> >; TSpec = seqan::Tag]', - inlined from 'seqan::Pipe >::Pipe(const TInput&) [with TInput = seqan::String, seqan::Packed<> >; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_source.h:74:24, - inlined from 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:67:22: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:9: warning: '*(unsigned char (*)[9])((char*)& + offsetof(seqan::Iter, seqan::Packed > >, seqan::Packed > >,seqan::Iter, seqan::Packed > >, seqan::Packed > >::data_iterator))' is used uninitialized [-Wuninitialized] - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In function 'void seqan::_createSuffixArrayPipelining(TSA&, const TObject&, TAlgSpec) [with TSA = String > >; TObject = String, Packed<> >; TAlgSpec = Skew7]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:102:25: note: '' declared here - 102 | data_iterator = TIterator(); - | ^~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -121171,11 +121207,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 19%] Linking CXX executable ../../bin/test_index_repeats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_repeats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_repeats.dir/link.d CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -o ../../bin/test_index_repeats -lrt -lz -lbz2 +[ 19%] Linking CXX executable ../../bin/test_index_finder +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_finder.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_finder.dir/link.d CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -o ../../bin/test_index_finder -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_index_repeats +[ 19%] Built target test_index_finder make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/DependInfo.cmake "--color=" @@ -121184,6 +121220,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 19%] Building CXX object tests/index/CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/index/CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o -MF CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o.d -o CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index/test_index_swift.cpp +[ 19%] Linking CXX executable ../../bin/test_index_repeats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_repeats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_repeats.dir/link.d CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o -o ../../bin/test_index_repeats -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_index_repeats +make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -MF CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o.d -o CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -121336,6 +121385,99 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:35: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -121378,6 +121520,25 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -121533,6 +121694,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { @@ -121586,6 +121760,53 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_transport.h: In instantiation of 'typename seqan::DisableIf > >::Type seqan::assign(TTarget&, TSource&) [with TTarget = Index, Alloc<> > >, IndexQGram, UngappedShape<10> >, Tag > >; TSource = Index, Alloc<> > >, IndexQGram, UngappedShape<10> >, Tag > >; typename DisableIf > >::Type = void]': @@ -121623,21 +121844,187 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index, seqan::Alloc<> > >, seqan::IndexQGram, seqan::UngappedShape<10> >, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::StringSet, seqan::Alloc<> > >; TShapeSpec = seqan::Shape, seqan::UngappedShape<10> >]' 143 | Index(Index const &other): | ^~~~~ -[ 19%] Linking CXX executable ../../bin/test_index_finder -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_finder.dir/link.txt --verbose=1 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' + 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' + 945 | std::cerr << file << ":" << line << " Assertion failed : " + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 946 | << expression1 << " == " << expression2 << " was: " << value1 + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.h:288:5: required from 'void SEQAN_TEST_test_journaled_set_assign_value() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:47:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' + 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' + 945 | std::cerr << file << ":" << line << " Assertion failed : " + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 946 | << expression1 << " == " << expression2 << " was: " << value1 + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' + 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.h:288:5: required from 'void SEQAN_TEST_test_journaled_set_assign_value() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2048 | (_arg1), # _arg1, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2049 | (_arg2), # _arg2)) { \ + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:47:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ [ 19%] Linking CXX executable ../../bin/test_index_swift cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_index_swift.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_finder.dir/link.d CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o -o ../../bin/test_index_finder -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_index_finder -make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -MF CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o.d -o CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_index_swift.dir/link.d CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o -o ../../bin/test_index_swift -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 19%] Built target test_index_swift @@ -121650,99 +122037,6 @@ [ 19%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -MF CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o.d -o CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:35: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:46, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_basic_observable.cpp:37: @@ -121843,38 +122137,6 @@ 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> @@ -121889,14 +122151,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -121918,6 +122172,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 19%] Linking CXX executable ../../bin/test_journaled_set +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_set.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -121964,131 +122220,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_set.dir/link.d CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -o ../../bin/test_journaled_set -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_journaled_set +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -MF CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d -o CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -122166,112 +122308,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' - 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' - 945 | std::cerr << file << ":" << line << " Assertion failed : " - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 946 | << expression1 << " == " << expression2 << " was: " << value1 - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.h:288:5: required from 'void SEQAN_TEST_test_journaled_set_assign_value() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:47:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence_journaled/sequence_journaled.h:385:20: required from 'TStream& seqan::operator<<(TStream&, const String >&) [with TStream = std::basic_ostream; TValue = char; THostSpec = Alloc<>; TJournalSpec = SortedArray; TBufferSpec = Alloc<>]' - 385 | stream << infix(s._insertionBuffer, value(it).physicalPosition, value(it).physicalPosition + value(it).length); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:946:71: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*, const char*, ...) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' - 945 | std::cerr << file << ":" << line << " Assertion failed : " - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 946 | << expression1 << " == " << expression2 << " was: " << value1 - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:998:21: required from 'bool seqan::ClassTest::testEqual(const char*, int, const T1&, const char*, const T2&, const char*) [with T1 = seqan::String, seqan::SortedArray> >; T2 = seqan::String >]' - 998 | return testEqual(file, line, value1, expression1, value2, expression2, 0); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.h:288:5: required from 'void SEQAN_TEST_test_journaled_set_assign_value() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 2047 | if (!::seqan::ClassTest::testEqual(__FILE__, __LINE__, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2048 | (_arg1), # _arg1, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2049 | (_arg2), # _arg2)) { \ - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set/test_journaled_set.cpp:47:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -[ 19%] Linking CXX executable ../../bin/test_basic_observable -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_observable.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_observable.dir/link.d CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -o ../../bin/test_basic_observable -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_basic_observable -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -MF CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d -o CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree.cpp:36: @@ -122365,6 +122401,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 19%] Linking CXX executable ../../bin/test_basic_observable +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_basic_observable.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_basic_observable.dir/link.d CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o -o ../../bin/test_basic_observable -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_basic_observable +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -MF CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d -o CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -122467,8 +122516,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_packed.h:163:14: note: because 'seqan::String >' has user-provided 'seqan::String >& seqan::String >::operator=(const seqan::String >&) [with TValue = bool; THostspec = seqan::Alloc<>]' 163 | String & operator =(String const & source) | ^~~~~~~~ -[ 19%] Linking CXX executable ../../bin/test_journaled_set -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_set.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -122496,17 +122543,92 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_set.dir/link.d CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o -o ../../bin/test_journaled_set -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_journaled_set -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -MF CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d -o CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:37: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -122532,6 +122654,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -122637,99 +122766,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: note: synthesized method 'seqan::DeltaMapEntry::DeltaMapEntry(seqan::DeltaMapEntry&&)' first required here 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_delta_map.cpp:37: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -122910,8 +122946,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 19%] Linking CXX executable ../../bin/test_journaled_string_tree -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_string_tree.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/delta_map_entry.h: In instantiation of 'static void seqan::InsertValueToString_::insertValue_(T&, TPosition, TValue&) [with T = seqan::String, seqan::Alloc<> >; TPosition = long int; TValue = const seqan::DeltaMapEntry; TExpand = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1410:54: required from 'void seqan::insertValue(String&, TPosition, const TValue&, Tag) [with TTargetValue = DeltaMapEntry; TTargetSpec = Alloc<>; TPosition = long int; TValue = DeltaMapEntry; TExpand = TagGenerous_]' 1410 | InsertValueToString_ >::insertValue_(me, pos, _value); @@ -122949,12 +122983,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1396:33: note: synthesized method 'seqan::DeltaMapEntry::DeltaMapEntry(const seqan::DeltaMapEntry&)' first required here 1396 | typename Value::Type temp_copy = _value; //temp copy because resizeSpace could invalidate _value | ^~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_string_tree.dir/link.d CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -o ../../bin/test_journaled_string_tree -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_journaled_string_tree -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/DependInfo.cmake "--color=" /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/delta_map_entry.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::DeltaMapEntry*; TParam = seqan::DeltaMapEntry]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = DeltaMapEntry*; TParam = DeltaMapEntry]' 305 | TConstructor::construct(it, std::forward(param_)); @@ -122994,6 +123022,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: note: synthesized method 'seqan::DeltaMapEntry::DeltaMapEntry(seqan::DeltaMapEntry&&)' first required here 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 19%] Linking CXX executable ../../bin/test_journaled_string_tree +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_string_tree.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_string_tree.dir/link.d CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o -o ../../bin/test_journaled_string_tree -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_journaled_string_tree +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -123179,6 +123215,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 19%] Linking CXX executable ../../bin/test_delta_map +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_delta_map.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_delta_map.dir/link.d CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -o ../../bin/test_delta_map -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_delta_map In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/journaled_string_tree_traverser.h: In instantiation of 'void SEQAN_TEST_test_journaled_string_tree_traverser_constructor() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_traverser.cpp:45:5: required from here @@ -123195,6 +123236,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_traverser.h:101:20: note: synthesized method 'seqan::TraverserImpl, seqan::Alloc<> > >, seqan::JstTraversalSpec >::TraverserImpl(const seqan::TraverserImpl, seqan::Alloc<> > >, seqan::JstTraversalSpec >&)' first required here 101 | TTraverser travCopy(traverser); | ^~~~~~~~ +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -MF CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d -o CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_find.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:78: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/journaled_string_tree_traverser_util.h: In instantiation of 'typename seqan::Position > >::Type seqan::impl::positionReference(const seqan::TraverserImpl >&) [with TJst = seqan::JournaledStringTree, seqan::Alloc<> > >; TSpec = void; typename seqan::Position > >::Type = seqan::String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/journaled_string_tree_traverser.h:390:39: required from 'typename seqan::Position > >::Type seqan::position(const TraverserImpl >&) [with TJst = JournaledStringTree, Alloc<> > >; TSpec = void; typename Position > >::Type = String >]' @@ -123527,19 +123576,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: note: synthesized method 'seqan::DeltaMapEntry::DeltaMapEntry(seqan::DeltaMapEntry&&)' first required here 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 19%] Linking CXX executable ../../bin/test_delta_map -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_delta_map.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_delta_map.dir/link.d CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o -o ../../bin/test_delta_map -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_delta_map -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Building CXX object tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -MF CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d -o CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_find.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree/test_journaled_string_tree_find.cpp:39: @@ -124267,19 +124303,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 20%] Linking CXX executable ../../bin/test_map -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_map.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_map.dir/link.d CMakeFiles/test_map.dir/test_map.cpp.o -o ../../bin/test_map -lrt -lz -lbz2 +[ 19%] Linking CXX executable ../../bin/test_journaled_string_tree_find +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_string_tree_find.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_string_tree_find.dir/link.d CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -o ../../bin/test_journaled_string_tree_find -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_map +[ 19%] Built target test_journaled_string_tree_find make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Building CXX object tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o +[ 19%] Building CXX object tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o -MF CMakeFiles/test_misc.dir/test_misc.cpp.o.d -o CMakeFiles/test_misc.dir/test_misc.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp +[ 20%] Linking CXX executable ../../bin/test_map +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_map.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_map.dir/link.d CMakeFiles/test_map.dir/test_map.cpp.o -o ../../bin/test_map -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_map +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Building CXX object tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o -MF CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d -o CMakeFiles/test_modifier.dir/test_modifier.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc/test_misc.cpp:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -124380,8 +124429,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 20%] Linking CXX executable ../../bin/test_journaled_string_tree_find -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_journaled_string_tree_find.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = double]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = double]' 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); @@ -124506,17 +124553,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode, seqan::StorePointsOnly>' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo]' 288 | IntervalTreeNode(IntervalTreeNode const & other) : | ^~~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_journaled_string_tree_find.dir/link.d CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o -o ../../bin/test_journaled_string_tree_find -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_journaled_string_tree_find -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Building CXX object tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o -MF CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d -o CMakeFiles/test_modifier.dir/test_modifier.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier/test_modifier.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = int; TCargo = int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = int; TCargo = int]' 1532 | findIntervals(result, g, pm, act_knot, query_begin, query_end); @@ -125166,6 +125202,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 20%] Building CXX object tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -MF CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o.d -o CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier_cyclic_shape/test_modifier_cyclic_shape.cpp +[ 20%] Linking CXX executable ../../bin/test_modifier +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier.dir/link.d CMakeFiles/test_modifier.dir/test_modifier.cpp.o -o ../../bin/test_modifier -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_modifier +make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Building CXX object tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -MF CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d -o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -125690,32 +125739,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/cyclic_shape.h:288:5: note: because 'seqan::CyclicShape >, 0> >' has user-provided 'seqan::CyclicShape >, RightOffset> >::CyclicShape(const seqan::CyclicShape >, RightOffset> >&) [with unsigned int LeftOffset = 1; unsigned int RightOffset = 0; int P00 = 1; int P01 = 0; int P02 = 0; int P03 = 0; int P04 = 0; int P05 = 0; int P06 = 0; int P07 = 0; int P08 = 0; int P09 = 0; int P10 = 0; int P11 = 0; int P12 = 0; int P13 = 0; int P14 = 0; int P15 = 0; int P16 = 0; int P17 = 0; int P18 = 0; int P19 = 0]' 288 | CyclicShape(CyclicShape const &) | ^~~~~~~~~~~ -[ 20%] Linking CXX executable ../../bin/test_modifier -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier.dir/link.d CMakeFiles/test_modifier.dir/test_modifier.cpp.o -o ../../bin/test_modifier -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_modifier -make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Building CXX object tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -MF CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d -o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp -[ 20%] Linking CXX executable ../../bin/test_modifier_cyclic_shape -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier_cyclic_shape.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier_cyclic_shape.dir/link.d CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -o ../../bin/test_modifier_cyclic_shape -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_modifier_cyclic_shape -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Building CXX object tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o -MF CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d -o CMakeFiles/test_parallel.dir/test_parallel.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp:35: @@ -125928,6 +125951,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 20%] Linking CXX executable ../../bin/test_modifier_cyclic_shape +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_modifier_cyclic_shape.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -125977,6 +126002,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_modifier_cyclic_shape.dir/link.d CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o -o ../../bin/test_modifier_cyclic_shape -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_modifier_cyclic_shape +[ 20%] Building CXX object tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -MF CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o.d -o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -126136,100 +126166,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:37: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile.h:46, @@ -126306,201 +126242,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:54, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 159 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: note: remove the '< >' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 333 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: note: remove the '< >' -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -[ 20%] Linking CXX executable ../../bin/test_parallel -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parallel.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parallel.dir/link.d CMakeFiles/test_parallel.dir/test_parallel.cpp.o -o ../../bin/test_parallel -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_parallel -[ 20%] Building CXX object tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -MF CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o.d -o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Building CXX object tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -MF CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d -o CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:35: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units_2.cpp:37: @@ -126626,6 +126367,16 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:54, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units/test_multiple_translation_units.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 159 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: note: remove the '< >' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 333 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: note: remove the '< >' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -126687,19 +126438,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/parse_lm.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -126726,13 +126464,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -126782,19 +126513,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -126947,14 +126665,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -126962,50 +126672,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile.h:46, @@ -127025,9 +126691,7 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -127045,7 +126709,7 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ @@ -127078,6 +126742,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -127104,19 +126781,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 372 | public std::binary_function | ^~~~~~~~~~~~~~~ @@ -127171,17 +126835,14 @@ 333 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:333:17: note: remove the '< >' -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Building CXX object tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o -MF CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d -o CMakeFiles/test_parallel.dir/test_parallel.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -127259,19 +126920,304 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 21%] Linking CXX executable ../../bin/test_parse_lm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parse_lm.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parse_lm.dir/link.d CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -o ../../bin/test_parse_lm -lrt -lz -lbz2 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel/test_parallel.cpp:37: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +[ 20%] Linking CXX executable ../../bin/test_multiple_translation_units +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_multiple_translation_units.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_multiple_translation_units.dir/link.d CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -o ../../bin/test_multiple_translation_units -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_parse_lm +[ 20%] Built target test_multiple_translation_units +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Building CXX object tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -MF CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d -o CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:35: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +[ 20%] Linking CXX executable ../../bin/test_parallel +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parallel.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parallel.dir/link.d CMakeFiles/test_parallel.dir/test_parallel.cpp.o -o ../../bin/test_parallel -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_parallel make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building CXX object tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o +[ 20%] Building CXX object tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o -MF CMakeFiles/test_pipe.dir/test_pipe.cpp.o.d -o CMakeFiles/test_pipe.dir/test_pipe.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/parse_lm.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm/test_parse_lm.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -127421,6 +127367,85 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46, @@ -127576,7 +127601,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 21%] Linking CXX executable ../../bin/test_multiple_translation_units In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -127590,7 +127614,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_multiple_translation_units.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 118 | public std::unary_function | ^~~~~~~~~~~~~~ @@ -127667,17 +127690,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_multiple_translation_units.dir/link.d CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o -o ../../bin/test_multiple_translation_units -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_multiple_translation_units -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building CXX object tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o -MF CMakeFiles/test_platform.dir/test_platform.cpp.o.d -o CMakeFiles/test_platform.dir/test_platform.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform/test_platform.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -127685,6 +127697,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const long unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = long unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.cpp:45: /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.h:74:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 74 | struct IdentityMap : public std::unary_function< TValue, TValue > @@ -127698,6 +127721,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 21%] Linking CXX executable ../../bin/test_parse_lm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_parse_lm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_parse_lm.dir/link.d CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o -o ../../bin/test_parse_lm -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Built target test_parse_lm +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Building CXX object tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o -MF CMakeFiles/test_platform.dir/test_platform.cpp.o.d -o CMakeFiles/test_platform.dir/test_platform.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform/test_platform.cpp [ 21%] Linking CXX executable ../../bin/test_platform cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_platform.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_platform.dir/link.d CMakeFiles/test_platform.dir/test_platform.cpp.o -o ../../bin/test_platform -lrt -lz -lbz2 @@ -127805,9 +127841,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 21%] Linking CXX executable ../../bin/test_random -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_random.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_random.dir/link.d CMakeFiles/test_random.dir/test_random.cpp.o -o ../../bin/test_random -lrt -lz -lbz2 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:65: In member function 'seqan::Pipe >& seqan::Pipe >::operator++() [with TInput = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >; unsigned int m = 3; TPack = seqan::Tag]', inlined from 'void comparePipeStream(TPipe&, const TStrings&) [with TPipe = seqan::Pipe, seqan::Alloc<> >, seqan::Source<> >, seqan::Sampler<3> >; TStrings = seqan::StringSet > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe/test_pipe.cpp:330:9: @@ -127821,6 +127854,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/tuple_base.h:141:46: note: at offset 3 into destination object 'seqan::Tuple, 3, seqan::Tag >::i' of size 3 141 | typename StoredTupleValue_::Type i[SIZE]; | ^ +[ 21%] Linking CXX executable ../../bin/test_random +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_random.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_random.dir/link.d CMakeFiles/test_random.dir/test_random.cpp.o -o ../../bin/test_random -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 21%] Built target test_random make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/depend @@ -127964,6 +128000,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 21%] Linking CXX executable ../../bin/test_pipe +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_pipe.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -128001,6 +128039,15 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_pipe.dir/link.d CMakeFiles/test_pipe.dir/test_pipe.cpp.o -o ../../bin/test_pipe -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 21%] Built target test_pipe +make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -128008,6 +128055,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 21%] Building CXX object tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -MF CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d -o CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:48: @@ -128090,8 +128139,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 21%] Linking CXX executable ../../bin/test_pipe -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_pipe.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -128118,17 +128165,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_pipe.dir/link.d CMakeFiles/test_pipe.dir/test_pipe.cpp.o -o ../../bin/test_pipe -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Built target test_pipe -make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building CXX object tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -MF CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d -o CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -128459,6 +128495,65 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -128585,6 +128680,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -128639,6 +128743,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -128689,6 +128800,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = unsigned int; TTag = Standard_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -128714,6 +128836,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] 773 | Iter > > result = lhs; | ^~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ @@ -128754,6 +128879,18 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' @@ -128825,6 +128962,46 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -128853,6 +129030,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] 89 | : data_iterator(_it) | ^~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ @@ -128893,6 +129079,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': @@ -128926,6 +129125,145 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -129003,65 +129341,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:385:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' 385 | return _beginDefault(me, tag_); @@ -129105,22 +129384,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:381:19: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' 381 | TSeqVIterator iter = seqBegin; @@ -129238,240 +129508,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid/test_reduced_aminoacid.cpp:38: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(T&, Rooted) [with T = Segment, Alloc<> >, ModView, SimpleType > > > > >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, ModView, SimpleType > > > > >, InfixSegment>, AdaptorIterator*, ModView, SimpleType > > > > >, Tag > >; Rooted = const Tag]': @@ -131318,10 +131354,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In static member function 'static const char* seqan::ClassTest::StaticData::_computePathToRoot()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -131467,6 +131499,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In static member function 'static const char* seqan::ClassTest::StaticData::_computePathToRoot()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/roi_io/test_roi_io.cpp:37: @@ -131611,6 +131647,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.cpp:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:61: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/rna_io/ebpseq_read_write.h: In lambda function: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_exception.h:158:29: warning: 'pairPos' may be used uninitialized [-Wmaybe-uninitialized] @@ -131626,13 +131669,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/rna_io/ebpseq_read_write.h:282:22: note: 'pairPos' declared here 282 | unsigned pairPos; | ^~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score/test_score.cpp:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79: @@ -131660,24 +131696,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 22%] Linking CXX executable ../../bin/test_rna_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_rna_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_rna_io.dir/link.d CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o -o ../../bin/test_rna_io -lrt -lz -lbz2 +[ 21%] Linking CXX executable ../../bin/test_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_score.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_score.dir/link.d CMakeFiles/test_score.dir/test_score.cpp.o -o ../../bin/test_score -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_rna_io +[ 21%] Built target test_score make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Building CXX object tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o +[ 21%] Building CXX object tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -MF CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o.d -o CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_combination.cpp -[ 22%] Linking CXX executable ../../bin/test_score -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_score.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_score.dir/link.d CMakeFiles/test_score.dir/test_score.cpp.o -o ../../bin/test_score -lrt -lz -lbz2 +[ 22%] Linking CXX executable ../../bin/test_rna_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_rna_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_rna_io.dir/link.d CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o -o ../../bin/test_rna_io -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_score +[ 22%] Built target test_rna_io make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/DependInfo.cmake "--color=" @@ -131780,100 +131816,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp:37: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -131934,66 +131876,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -132036,6 +131918,86 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp:37: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -132073,15 +132035,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -132094,13 +132047,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -132253,44 +132206,148 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_extension.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 782 | public std::binary_function < TSAValue, TSAValue, bool > @@ -132487,27 +132544,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] @@ -132535,19 +132571,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 23%] Building CXX object tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/test_seeds_global_chaining.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/test_seeds_global_chaining.cpp.o -MF CMakeFiles/test_seeds_global_chaining.dir/test_seeds_global_chaining.cpp.o.d -o CMakeFiles/test_seeds_global_chaining.dir/test_seeds_global_chaining.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_global_chaining.cpp -[ 23%] Linking CXX executable ../../bin/test_seeds_extension -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_extension.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_extension.dir/link.d CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o -o ../../bin/test_seeds_extension -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Built target test_seeds_extension -make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -MF CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o.d -o CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -132702,6 +132725,14 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 23%] Linking CXX executable ../../bin/test_seeds_extension +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_extension.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_extension.dir/link.d CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o -o ../../bin/test_seeds_extension -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 23%] Built target test_seeds_extension +make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -132711,6 +132742,9 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -132718,6 +132752,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 23%] Building CXX object tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -MF CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o.d -o CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -132945,6 +132981,27 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -133039,27 +133096,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -133564,6 +133600,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -133644,6 +133689,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -133658,82 +133710,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_diagonal.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -133961,6 +133937,66 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_diagonal.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -133968,6 +134004,20 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -134010,20 +134060,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -134275,7 +134311,7 @@ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:38: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp:38: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -134288,7 +134324,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -134359,17 +134395,10 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp:38: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:38: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -134382,7 +134411,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_base.cpp:37: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -134453,6 +134482,20 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -134475,10 +134518,25 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp:40: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -134520,28 +134578,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_seeds_seed_set_unordered.cpp:40: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -134671,15 +134707,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -134730,13 +134757,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -134839,6 +134859,22 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -134865,6 +134901,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -134964,13 +135007,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -135536,6 +135572,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 23%] Linking CXX executable ../../bin/test_seeds_seed_set_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_set_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_set_base.dir/link.d CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -o ../../bin/test_seeds_seed_set_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 23%] Built target test_seeds_seed_set_base +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 23%] Building CXX object tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -MF CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o.d -o CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:40: @@ -135588,19 +135637,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 23%] Linking CXX executable ../../bin/test_seeds_seed_set_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_seed_set_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_seed_set_base.dir/link.d CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o -o ../../bin/test_seeds_seed_set_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Built target test_seeds_seed_set_base -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 23%] Building CXX object tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -MF CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o.d -o CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment >, SuffixSegment>; TIterator = const char*; TSpec = Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, SuffixSegment>; TSequenceV = Segment >, SuffixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; @@ -136490,6 +136526,86 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 129 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/refwrap.h:39, + from /usr/include/c++/14/vector:68, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:37: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' 392 | return _beginDefault(me, tag_); @@ -136682,86 +136798,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 129 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/refwrap.h:39, - from /usr/include/c++/14/vector:68, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_banded_chain_alignment_interface.cpp:37: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -136829,99 +136865,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]' - 647 | return Iter >(container(left), hostIterator(left) - right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; - | ~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String >, Alloc<> >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' - 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String >, Alloc<> >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String >, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String >, Alloc<> >; TScoreValue = int; TScoreSpec = Tag]' - 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1012:35: required from 'void SEQAN_TEST_test_banded_chain_alignment_issue_1020() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 1012 | int res = bandedChainAlignment(align, seedChain, scoringScheme, 14); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1109:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment >, InfixSegment>; TIterator = const char*; TSpec = Tag]' - 647 | return Iter >(container(left), hostIterator(left) - right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>; TSequenceV = Segment >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; - | ~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment >, InfixSegment>; TSequenceV = Segment >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment >, InfixSegment>; TSequenceV = Segment >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = SeedSet >, Tag >; TSequenceH = String >; TSequenceV = String >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String >; TAlignSpec = Tag; TSeeds = SeedSet >, Tag >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:221:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String >; TAlignSpec = Tag; TSeeds = SeedSet >, Tag >; TScoreValue = int; TScoreSpec = Tag; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = Tag]' - 221 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, alignConfig, bandExtension); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:68:37: required from 'void testBandedChainAlignmentEmptyChain(const TGapCosts&) [with TGapCosts = seqan::Tag]' - 68 | int score = bandedChainAlignment(align, seedSet, scoreScheme, alignConfig, 5); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1020:39: required from 'void SEQAN_TEST_test_banded_chain_alignment_empty_set_linear() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 1020 | testBandedChainAlignmentEmptyChain(seqan::LinearGaps()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1097:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -137013,6 +136956,52 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]' + 647 | return Iter >(container(left), hostIterator(left) - right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; + | ~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String >, Alloc<> >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' + 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String >, Alloc<> >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String >, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String >, Alloc<> >; TScoreValue = int; TScoreSpec = Tag]' + 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1012:35: required from 'void SEQAN_TEST_test_banded_chain_alignment_issue_1020() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 1012 | int res = bandedChainAlignment(align, seedChain, scoringScheme, 14); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1109:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -137172,6 +137161,53 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment >, InfixSegment>; TIterator = const char*; TSpec = Tag]' + 647 | return Iter >(container(left), hostIterator(left) - right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment >, InfixSegment>; TSequenceV = Segment >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; + | ~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment >, InfixSegment>; TSequenceV = Segment >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment >, InfixSegment>; TSequenceV = Segment >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = SeedSet >, Tag >; TSequenceH = String >; TSequenceV = String >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String >; TAlignSpec = Tag; TSeeds = SeedSet >, Tag >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:221:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String >; TAlignSpec = Tag; TSeeds = SeedSet >, Tag >; TScoreValue = int; TScoreSpec = Tag; bool TFirstRow = true; bool TFirstColumn = true; bool TLastColumn = true; bool TLastRow = true; TACSpec = Tag]' + 221 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, alignConfig, bandExtension); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:68:37: required from 'void testBandedChainAlignmentEmptyChain(const TGapCosts&) [with TGapCosts = seqan::Tag]' + 68 | int score = bandedChainAlignment(align, seedSet, scoreScheme, alignConfig, 5); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1020:39: required from 'void SEQAN_TEST_test_banded_chain_alignment_empty_set_linear() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 1020 | testBandedChainAlignmentEmptyChain(seqan::LinearGaps()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds/test_align_banded_chain_impl.cpp:1097:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] @@ -140691,15 +140727,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1057:13: note: at offset 8 into destination object 'string' of size 8 1057 | TString string; | ^~~~~~ -In function 'void testSequenceBack(TString&) [with TString = std::forward_list]', - inlined from 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1084:21: -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1062:5: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] - 1062 | val = 'A'; - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In member function 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1057:13: note: at offset 8 into destination object 'string' of size 8 - 1057 | TString string; - | ^~~~~~ [ 24%] Linking CXX executable ../../bin/test_seeds_banded_chain_alignment_interface cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/link.d CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o -o ../../bin/test_seeds_banded_chain_alignment_interface -lrt -lz -lbz2 @@ -140808,6 +140835,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In function 'void testSequenceBack(TString&) [with TString = std::forward_list]', + inlined from 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1084:21: +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1062:5: warning: writing 1 byte into a region of size 0 [-Wstringop-overflow=] + 1062 | val = 'A'; + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In member function 'void StringTestCommon__Back::runTest() [with SEQAN_TParam = std::forward_list]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:1057:13: note: at offset 8 into destination object 'string' of size 8 + 1057 | TString string; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_string_set.h: In instantiation of 'void testStringSetIter(TStringSet&) [with TStringSet = const seqan::StringSet >, seqan::Owner<> >]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_string_set.h:1566:22: required from 'void StringSetTestCommon__Iter::runTest() [with SEQAN_TParam = seqan::StringSet >, seqan::Owner<> >]' 1566 | testStringSetIter(constStrSet); @@ -141257,28 +141293,6 @@ /usr/include/c++/14/bits/new_allocator.h:151:55: note: destination object of size 1 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ -In file included from /usr/include/c++/14/string:51: -In static member function 'static void std::__copy_move::__assign_one(_Tp*, _Up*) [with _Tp = char; _Up = const char]', - inlined from 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]' at /usr/include/c++/14/bits/stl_algobase.h:455:20, - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1238:31, - inlined from 'void seqan::append(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Array<100>; TSource = String >; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1287:42, - inlined from 'void seqan::append(TTarget&&, const TSource&) [with TTarget = String >&; TSource = String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:903:11, - inlined from 'void testSequenceAppend(TString&) [with TString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:964:15: -/usr/include/c++/14/bits/stl_algobase.h:413:17: warning: 'string2.seqan::String >::data_begin[0]' may be used uninitialized [-Wmaybe-uninitialized] - 413 | { *__to = *__from; } - | ~~~~~~^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In function 'void testSequenceAppend(TString&) [with TString = seqan::String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:962:17: note: 'string2' declared here - 962 | TString string2; - | ^~~~~~~ [ 24%] Linking CXX executable ../../bin/test_stringset_v2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_stringset_v2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_stringset_v2.dir/link.d CMakeFiles/test_stringset_v2.dir/test_stringset_v2.cpp.o -o ../../bin/test_stringset_v2 -lrt -lz -lbz2 @@ -141386,6 +141400,28 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static void std::__copy_move::__assign_one(_Tp*, _Up*) [with _Tp = char; _Up = const char]', + inlined from 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]' at /usr/include/c++/14/bits/stl_algobase.h:455:20, + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AppendString_::append_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const seqan::String >; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1238:31, + inlined from 'void seqan::append(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Array<100>; TSource = String >; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1287:42, + inlined from 'void seqan::append(TTarget&&, const TSource&) [with TTarget = String >&; TSource = String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:903:11, + inlined from 'void testSequenceAppend(TString&) [with TString = seqan::String >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:964:15: +/usr/include/c++/14/bits/stl_algobase.h:413:17: warning: 'string2.seqan::String >::data_begin[0]' may be used uninitialized [-Wmaybe-uninitialized] + 413 | { *__to = *__from; } + | ~~~~~~^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h: In function 'void testSequenceAppend(TString&) [with TString = seqan::String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence/test_sequence.h:962:17: note: 'string2' declared here + 962 | TString string2; + | ^~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': @@ -141489,8 +141525,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 24%] Building CXX object tests/simd/CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -msse4 -MD -MT tests/simd/CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o -MF CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o.d -o CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd/test_simd_vector.cpp -[ 24%] Linking CXX executable ../../bin/test_sequence_v2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sequence_v2.dir/link.txt --verbose=1 [ 25%] Linking CXX executable ../../bin/test_simd_vector_sse4 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simd_vector_sse4.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simd_vector_sse4.dir/link.d CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o -o ../../bin/test_simd_vector_sse4 -lrt -lz -lbz2 @@ -141504,6 +141538,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 25%] Building CXX object tests/simd/CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -mavx2 -MD -MT tests/simd/CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o -MF CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o.d -o CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd/test_simd_vector.cpp +[ 25%] Linking CXX executable ../../bin/test_sequence_v2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sequence_v2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_sequence_v2.dir/link.d CMakeFiles/test_sequence_v2.dir/test_sequence_v2.cpp.o -o ../../bin/test_sequence_v2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 25%] Built target test_sequence_v2 @@ -142258,6 +142294,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 25%] Linking CXX executable ../../bin/test_simd_vector_avx2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simd_vector_avx2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -142286,6 +142324,12 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simd_vector_avx2.dir/link.d CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o -o ../../bin/test_simd_vector_avx2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Built target test_simd_vector_avx2 +make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -142294,6 +142338,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object tests/stream/CMakeFiles/test_stream.dir/test_stream.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/stream/CMakeFiles/test_stream.dir/test_stream.cpp.o -MF CMakeFiles/test_stream.dir/test_stream.cpp.o.d -o CMakeFiles/test_stream.dir/test_stream.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -142844,6 +142893,93 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream.cpp:39: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream.cpp:38: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 250 | return value(me); @@ -142922,6 +143058,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >, seqan::Tag >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, SuffixSegment>; typename Iterator >::Type = Iter >, SuffixSegment>, AdaptorIterator > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, SuffixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, SuffixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, SuffixSegment>; typename Iterator >::Type = Iter >, SuffixSegment>, AdaptorIterator > >]' 392 | return _beginDefault(me, tag_); @@ -143411,117 +143554,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -[ 25%] Linking CXX executable ../../bin/test_simd_vector_avx2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_simd_vector_avx2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_simd_vector_avx2.dir/link.d CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o -o ../../bin/test_simd_vector_avx2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target test_simd_vector_avx2 -make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building CXX object tests/stream/CMakeFiles/test_stream.dir/test_stream.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/stream/CMakeFiles/test_stream.dir/test_stream.cpp.o -MF CMakeFiles/test_stream.dir/test_stream.cpp.o.d -o CMakeFiles/test_stream.dir/test_stream.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream.cpp:39: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream.cpp:38: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -143553,52 +143593,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, PrefixSegment>]', - inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:273:64: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::PrefixSegment>]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, SuffixSegment>]', - inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:274:64: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::SuffixSegment>]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long long unsigned int; TSource = std::__cxx11::basic_string]', inlined from 'void LexicalCastTest__Exception::runTest() [with SEQAN_TParam = seqan::Pair, void>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream_lexical_cast.h:233:66: @@ -143648,6 +143642,48 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, PrefixSegment>]', + inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:273:64: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::PrefixSegment>]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = Segment >, SuffixSegment>]', + inlined from 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:274:64: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int seqan::read(FragmentStore&, TFile&, Amos) [with TFile = std::basic_fstream; TSpec = void; TConfig = FragmentStoreConfig]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::Segment >, seqan::SuffixSegment>]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = long long unsigned int; TSource = String >]', inlined from 'void LexicalCastTest__Exception::runTest() [with SEQAN_TParam = seqan::Pair >, void>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream/test_stream_lexical_cast.h:233:66: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -143951,8 +143987,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 25%] Building CXX object tests/swift_local/CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/swift_local/CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o -MF CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o.d -o CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/swift_local/test_find_swift.cpp -[ 25%] Linking CXX executable ../../bin/test_store -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_store.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -144041,17 +144075,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_store.dir/link.d CMakeFiles/test_store.dir/test_store.cpp.o -o ../../bin/test_store -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Built target test_store -make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building CXX object tests/tabix_io/CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/tabix_io/CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -MF CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o.d -o CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -144366,99 +144389,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:35: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/swift_local/test_find_swift.cpp:38: @@ -144488,61 +144418,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.h:51:22: required from 'void SEQAN_TEST_test_tabix_io_read_indexed_vcf() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 51 | seqan::VcfFileIn vcfFile(toCString(vcfPath)); - | ^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:43:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.h:51:22: required from 'void SEQAN_TEST_test_tabix_io_read_indexed_vcf() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' - 51 | seqan::VcfFileIn vcfFile(toCString(vcfPath)); - | ^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:43:5: required from here - 1701 | SEQAN_TEST_ ## test_name(); \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/tests/swift_local/test_find_swift.cpp: In instantiation of 'seqan::Align > testLongestEpsMatch(const TString&, const TString&) [with TString = seqan::String, seqan::Alloc<> >]': /build/reproducible-path/seqan2-2.4.0+dfsg/tests/swift_local/test_find_swift.cpp:219:53: required from 'void SEQAN_TEST_test_longest_epsMatch() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' 219 | Align alignment = testLongestEpsMatch(seq1, seq2); @@ -144727,6 +144602,167 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/align_base.h:104:13: note: because 'seqan::Align, seqan::Alloc<> > >' has user-provided 'seqan::Align& seqan::Align::operator=(const seqan::Align&) [with TSource = seqan::String, seqan::Alloc<> >; TSpec = seqan::Tag]' 104 | Align & operator=(Align const & other) | ^~~~~~~~ +[ 25%] Linking CXX executable ../../bin/test_store +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_store.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_store.dir/link.d CMakeFiles/test_store.dir/test_store.cpp.o -o ../../bin/test_store -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Built target test_store +make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object tests/tabix_io/CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/tabix_io/CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -MF CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o.d -o CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:35: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.h:51:22: required from 'void SEQAN_TEST_test_tabix_io_read_indexed_vcf() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 51 | seqan::VcfFileIn vcfFile(toCString(vcfPath)); + | ^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:43:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.h:51:22: required from 'void SEQAN_TEST_test_tabix_io_read_indexed_vcf() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' + 51 | seqan::VcfFileIn vcfFile(toCString(vcfPath)); + | ^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io/test_tabix_io.cpp:43:5: required from here + 1701 | SEQAN_TEST_ ## test_name(); \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -144766,19 +144802,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 26%] Linking CXX executable ../../bin/test_tabix_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tabix_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_tabix_io.dir/link.d CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -o ../../bin/test_tabix_io -lrt -lz -lbz2 +[ 25%] Linking CXX executable ../../bin/test_find_swift +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find_swift.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find_swift.dir/link.d CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o -o ../../bin/test_find_swift -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 26%] Built target test_tabix_io +[ 25%] Built target test_find_swift make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 26%] Building CXX object tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o +[ 25%] Building CXX object tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o -MF CMakeFiles/test_translation.dir/test_translation.cpp.o.d -o CMakeFiles/test_translation.dir/test_translation.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation/test_translation.cpp +[ 26%] Linking CXX executable ../../bin/test_tabix_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tabix_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_tabix_io.dir/link.d CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o -o ../../bin/test_tabix_io -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 26%] Built target test_tabix_io +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 26%] Building CXX object tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -MF CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o.d -o CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation/test_translation.cpp:38: @@ -145117,6 +145166,83 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/istream:40, + from /usr/include/c++/14/sstream:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:38: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, PrefixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>]' @@ -145166,6 +145292,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, PrefixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::PrefixSegment>]' 151 | _host(_toPointer(host)), tmp_value() @@ -145332,103 +145465,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 26%] Linking CXX executable ../../bin/test_find_swift -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_find_swift.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_find_swift.dir/link.d CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o -o ../../bin/test_find_swift -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 26%] Built target test_find_swift -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 26%] Building CXX object tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_ENABLE_TESTING=1 -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -MF CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o.d -o CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/istream:40, - from /usr/include/c++/14/sstream:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io/test_ucsc_io.cpp:38: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -145790,6 +145826,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ [ 26%] Linking CXX executable ../../bin/test_translation cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_translation.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_translation.dir/link.d CMakeFiles/test_translation.dir/test_translation.cpp.o -o ../../bin/test_translation -lrt -lz -lbz2 @@ -145803,7 +145843,33 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 26%] Building CXX object demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o -MF CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o.d -o CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/blast/blast_in_lowlevel.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, + inlined from 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/vcf_io/test_vcf_io.h:369:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_vcf_io_isOpen_fileIn() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ @@ -145942,52 +146008,35 @@ /usr/include/c++/14/bits/stl_algo.h:891:5: note: declared here 891 | unique(_ForwardIterator __first, _ForwardIterator __last) | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, - inlined from 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]' at /build/reproducible-path/seqan2-2.4.0+dfsg/tests/vcf_io/test_vcf_io.h:369:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void SEQAN_TEST_test_vcf_io_write_vcf_record() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter >, AdaptorIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Owner<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 27%] Linking CXX executable ../bin/demo_blast_blast_in_lowlevel -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.d CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o -o ../bin/demo_blast_blast_in_lowlevel -lrt -lz -lbz2 +[ 26%] Linking CXX executable ../../bin/test_vcf_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_vcf_io.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_vcf_io.dir/link.d CMakeFiles/test_vcf_io.dir/test_vcf_io.cpp.o -o ../../bin/test_vcf_io -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target demo_blast_blast_in_lowlevel +[ 26%] Built target test_vcf_io make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o +[ 26%] Building CXX object demos/CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -MF CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o.d -o CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'void SEQAN_TEST_test_vcf_io_isOpen_fileIn() [with bool speed_up_dummy_to_prevent_compilation_of_unused_tests_ = true]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +[ 27%] Linking CXX executable ../bin/demo_blast_blast_in_lowlevel +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.d CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o -o ../bin/demo_blast_blast_in_lowlevel -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Built target demo_blast_blast_in_lowlevel +make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -MF CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o.d -o CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -146082,62 +146131,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp:4: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 27%] Linking CXX executable ../../bin/test_vcf_io -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_vcf_io.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/test_vcf_io.dir/link.d CMakeFiles/test_vcf_io.dir/test_vcf_io.cpp.o -o ../../bin/test_vcf_io -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target test_vcf_io -make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -MF CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o.d -o CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp -[ 27%] Linking CXX executable ../bin/demo_dox_align_align -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_align.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_align.dir/link.d CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -o ../bin/demo_dox_align_align -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target demo_dox_align_align -make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -MF CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o.d -o CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp:3: @@ -146233,6 +146226,23 @@ 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp:4: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> @@ -146260,6 +146270,45 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 27%] Linking CXX executable ../bin/demo_dox_align_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_align.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_align.dir/link.d CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o -o ../bin/demo_dox_align_align -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Built target demo_dox_align_align +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -MF CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o.d -o CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp +[ 27%] Linking CXX executable ../bin/demo_dox_align_compute_alignment_stats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.d CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -o ../bin/demo_dox_align_compute_alignment_stats -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Built target demo_dox_align_compute_alignment_stats +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp:1: @@ -146385,32 +146434,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 27%] Linking CXX executable ../bin/demo_dox_align_gaps_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_gaps_example.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_gaps_example.dir/link.d CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -o ../bin/demo_dox_align_gaps_example -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target demo_dox_align_gaps_example -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp -[ 27%] Linking CXX executable ../bin/demo_dox_align_compute_alignment_stats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.d CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o -o ../bin/demo_dox_align_compute_alignment_stats -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target demo_dox_align_compute_alignment_stats -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp:4: @@ -146520,6 +146543,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 27%] Linking CXX executable ../bin/demo_dox_align_gaps_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_gaps_example.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_gaps_example.dir/link.d CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o -o ../bin/demo_dox_align_gaps_example -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Built target demo_dox_align_gaps_example +make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -MF CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o.d -o CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp:4: @@ -146603,19 +146652,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -146655,24 +146691,24 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 29%] Linking CXX executable ../bin/demo_dox_align_global_alignment_unbanded -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -o ../bin/demo_dox_align_global_alignment_unbanded -lrt -lz -lbz2 +[ 27%] Linking CXX executable ../bin/demo_dox_align_global_alignment_banded +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -o ../bin/demo_dox_align_global_alignment_banded -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_global_alignment_unbanded +[ 27%] Built target demo_dox_align_global_alignment_banded make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o +[ 27%] Building CXX object demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o -MF CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o.d -o CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp -[ 29%] Linking CXX executable ../bin/demo_dox_align_global_alignment_banded -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o -o ../bin/demo_dox_align_global_alignment_banded -lrt -lz -lbz2 +[ 29%] Linking CXX executable ../bin/demo_dox_align_global_alignment_unbanded +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o -o ../bin/demo_dox_align_global_alignment_unbanded -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_global_alignment_banded +[ 29%] Built target demo_dox_align_global_alignment_unbanded make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/DependInfo.cmake "--color=" @@ -146790,128 +146826,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -147187,6 +147101,128 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -148674,19 +148710,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o -MF CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o.d -o CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_profile/profile_seq_score.cpp -[ 29%] Linking CXX executable ../bin/demo_dox_align_profile_profile_seq_frac_score -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.d CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/dox/align_profile/profile_seq_frac_score.cpp.o -o ../bin/demo_dox_align_profile_profile_seq_frac_score -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_profile_profile_seq_frac_score -make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -MF CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o.d -o CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align_profile.h:44, @@ -148819,92 +148842,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:49: @@ -148914,32 +148851,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 29%] Linking CXX executable ../bin/demo_dox_align_profile_profile_seq_frac_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -148977,19 +148890,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -148997,6 +148897,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.d CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/dox/align_profile/profile_seq_frac_score.cpp.o -o ../bin/demo_dox_align_profile_profile_seq_frac_score -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Built target demo_dox_align_profile_profile_seq_frac_score +make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Building CXX object demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -MF CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o.d -o CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 88 | public std::unary_function, bool> @@ -149381,6 +149292,131 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ [ 29%] Linking CXX executable ../bin/demo_dox_align_profile_profile_seq_score cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/link.d CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o -o ../bin/demo_dox_align_profile_profile_seq_score -lrt -lz -lbz2 @@ -149394,19 +149430,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 29%] Building CXX object demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o -MF CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o.d -o CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/arg_parse/argument_parser.cpp -[ 29%] Linking CXX executable ../bin/demo_dox_align_split_split_alignment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_split_split_alignment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_split_split_alignment.dir/link.d CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -o ../bin/demo_dox_align_split_split_alignment -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_align_split_split_alignment -make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building CXX object demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o -MF CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o.d -o CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_file_in.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -149498,6 +149521,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 29%] Linking CXX executable ../bin/demo_dox_align_split_split_alignment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_align_split_split_alignment.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_align_split_split_alignment.dir/link.d CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o -o ../bin/demo_dox_align_split_split_alignment -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Built target demo_dox_align_split_split_alignment +make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Building CXX object demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o -MF CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o.d -o CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_file_in.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -149976,19 +150012,47 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +[ 29%] Linking CXX executable ../bin/demo_dox_arg_parse_argument_parser +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.txt --verbose=1 [ 29%] Linking CXX executable ../bin/demo_dox_bam_io_bam_file_in cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bam_io_bam_file_in.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.d CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o -o ../bin/demo_dox_arg_parse_argument_parser -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bam_io_bam_file_in.dir/link.d CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o -o ../bin/demo_dox_bam_io_bam_file_in -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 29%] Built target demo_dox_arg_parse_argument_parser [ 29%] Built target demo_dox_bam_io_bam_file_in make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/depend +make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 30%] Building CXX object demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o -MF CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o.d -o CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp +[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o -MF CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o.d -o CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/enable_if.cpp +[ 30%] Linking CXX executable ../bin/demo_dox_basic_enable_if +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_enable_if.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_enable_if.dir/link.d CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o -o ../bin/demo_dox_basic_enable_if -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Built target demo_dox_basic_enable_if +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_control.cpp +[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_control +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_control.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -150080,19 +150144,17 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 30%] Linking CXX executable ../bin/demo_dox_arg_parse_argument_parser -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.d CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o -o ../bin/demo_dox_arg_parse_argument_parser -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_control.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o -o ../bin/demo_dox_basic_metaprogramming_control -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_arg_parse_argument_parser -make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/depend +[ 30%] Built target demo_dox_basic_metaprogramming_control +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/build +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o -MF CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o.d -o CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/enable_if.cpp +[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_logic.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -150124,6 +150186,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_logic +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -o ../bin/demo_dox_basic_metaprogramming_logic -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Built target demo_dox_basic_metaprogramming_logic +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_math.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -150150,8 +150225,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 30%] Linking CXX executable ../bin/demo_dox_basic_enable_if -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_enable_if.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -150207,8 +150280,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_enable_if.dir/link.d CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o -o ../bin/demo_dox_basic_enable_if -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -150235,15 +150306,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 30%] Built target demo_dox_basic_enable_if -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_control.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -150272,19 +150334,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_control -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_control.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_control.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o -o ../bin/demo_dox_basic_metaprogramming_control -lrt -lz -lbz2 +[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_math +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -o ../bin/demo_dox_basic_metaprogramming_math -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_basic_metaprogramming_control -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend +[ 30%] Built target demo_dox_basic_metaprogramming_math +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_logic.cpp +[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_switch.cpp +[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_switch +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -o ../bin/demo_dox_basic_metaprogramming_switch -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Built target demo_dox_basic_metaprogramming_switch +make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Building CXX object demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -MF CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o.d -o CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/simple_type_construction.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, @@ -150410,50 +150485,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_logic -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o -o ../bin/demo_dox_basic_metaprogramming_logic -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_basic_metaprogramming_logic -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_math.cpp -[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_math -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o -o ../bin/demo_dox_basic_metaprogramming_math -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_basic_metaprogramming_math -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Building CXX object demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -MF CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o.d -o CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/metaprogramming_switch.cpp -[ 30%] Linking CXX executable ../bin/demo_dox_basic_metaprogramming_switch -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.d CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o -o ../bin/demo_dox_basic_metaprogramming_switch -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Built target demo_dox_basic_metaprogramming_switch -make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 30%] Linking CXX executable ../bin/demo_dox_bam_io_bam_tags_dict -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.txt --verbose=1 -[ 31%] Building CXX object demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -MF CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o.d -o CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/simple_type_construction.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.d CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o -o ../bin/demo_dox_bam_io_bam_tags_dict -lrt -lz -lbz2 +[ 31%] Linking CXX executable ../bin/demo_dox_basic_simple_type_construction +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.d CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -o ../bin/demo_dox_basic_simple_type_construction -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Built target demo_dox_bam_io_bam_tags_dict +[ 31%] Built target demo_dox_basic_simple_type_construction make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/DependInfo.cmake "--color=" @@ -150462,19 +150498,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 31%] Building CXX object demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o -MF CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o.d -o CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp -[ 31%] Linking CXX executable ../bin/demo_dox_basic_simple_type_construction -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.d CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o -o ../bin/demo_dox_basic_simple_type_construction -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Built target demo_dox_basic_simple_type_construction -make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Building CXX object demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -MF CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o.d -o CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bed_io/UNUSED_bed_stream_read.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -150566,6 +150589,30 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 31%] Linking CXX executable ../bin/demo_dox_bam_io_bam_tags_dict +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.d CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o -o ../bin/demo_dox_bam_io_bam_tags_dict -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target demo_dox_bam_io_bam_tags_dict +make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Building CXX object demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -MF CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o.d -o CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bed_io/UNUSED_bed_stream_read.cpp +[ 31%] Linking CXX executable ../bin/demo_dox_basic_zip_iterator +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_zip_iterator.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_zip_iterator.dir/link.d CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o -o ../bin/demo_dox_basic_zip_iterator -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target demo_dox_basic_zip_iterator +make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -150647,6 +150694,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 31%] Building CXX object demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -MF CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o.d -o CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -150707,50 +150756,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 31%] Linking CXX executable ../bin/demo_dox_basic_zip_iterator -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_basic_zip_iterator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_basic_zip_iterator.dir/link.d CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o -o ../bin/demo_dox_basic_zip_iterator -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Built target demo_dox_basic_zip_iterator -make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Building CXX object demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -MF CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o.d -o CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:113:43, - inlined from 'void seqan::readRecord(BedRecord&, CharString&, TForwardIter&, const Bed&) [with TSpec = Tag; TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:273:25, - inlined from 'void seqan::readRecord(BedRecord&, FormattedFile, Tag, TSpec>&) [with TRecordSpec = Tag; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/bed_file.h:111:15, - inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bed_io/UNUSED_bed_stream_read.cpp:30:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:119:41, - inlined from 'void seqan::readRecord(BedRecord&, CharString&, TForwardIter&, const Bed&) [with TSpec = Tag; TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:273:25, - inlined from 'void seqan::readRecord(BedRecord&, FormattedFile, Tag, TSpec>&) [with TRecordSpec = Tag; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/bed_file.h:111:15, - inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bed_io/UNUSED_bed_stream_read.cpp:30:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -150881,6 +150886,37 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:113:43, + inlined from 'void seqan::readRecord(BedRecord&, CharString&, TForwardIter&, const Bed&) [with TSpec = Tag; TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:273:25, + inlined from 'void seqan::readRecord(BedRecord&, FormattedFile, Tag, TSpec>&) [with TRecordSpec = Tag; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/bed_file.h:111:15, + inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bed_io/UNUSED_bed_stream_read.cpp:30:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:119:41, + inlined from 'void seqan::readRecord(BedRecord&, CharString&, TForwardIter&, const Bed&) [with TSpec = Tag; TForwardIter = Iter, std::char_traits >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:273:25, + inlined from 'void seqan::readRecord(BedRecord&, FormattedFile, Tag, TSpec>&) [with TRecordSpec = Tag; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/bed_file.h:111:15, + inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bed_io/UNUSED_bed_stream_read.cpp:30:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:49: @@ -150890,19 +150926,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 31%] Linking CXX executable ../bin/demo_dox_bed_io_UNUSED_bed_stream_read -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.d CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -o ../bin/demo_dox_bed_io_UNUSED_bed_stream_read -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Built target demo_dox_bed_io_UNUSED_bed_stream_read -make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 31%] Building CXX object demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -MF CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o.d -o CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -151254,85 +151277,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/refwrap.h:39, - from /usr/include/c++/14/deque:67, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:41: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +[ 31%] Linking CXX executable ../bin/demo_dox_bed_io_UNUSED_bed_stream_read +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.d CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o -o ../bin/demo_dox_bed_io_UNUSED_bed_stream_read -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target demo_dox_bed_io_UNUSED_bed_stream_read +make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 31%] Building CXX object demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -MF CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o.d -o CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -151358,16 +151315,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -151445,21 +151392,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -151485,6 +151417,85 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_aho_corasick.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/refwrap.h:39, + from /usr/include/c++/14/deque:67, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:41: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -151671,6 +151682,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = unsigned int; TTag = Standard_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -151882,6 +151903,21 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > > >' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' 288 | IntervalTreeNode(IntervalTreeNode const & other) : | ^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -154721,6 +154757,18 @@ [ 32%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp [ 32%] Linking CXX executable ../bin/demo_dox_graph_algorithms_dag_shortest_path +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/dox/graph_algorithms/dag_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_dag_shortest_path -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 32%] Built target demo_dox_graph_algorithms_dag_shortest_path +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 32%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -154758,7 +154806,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 228 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -154815,12 +154862,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.d CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/dox/graph_algorithms/dag_shortest_path.cpp.o -o ../bin/demo_dox_graph_algorithms_dag_shortest_path -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 32%] Built target demo_dox_graph_algorithms_dag_shortest_path -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> @@ -154835,24 +154876,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 32%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp -[ 33%] Linking CXX executable ../bin/demo_dox_graph_algorithms_depth_first_search -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/link.d CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o -o ../bin/demo_dox_graph_algorithms_depth_first_search -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 33%] Built target demo_dox_graph_algorithms_depth_first_search -make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 33%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -154960,6 +154983,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 33%] Linking CXX executable ../bin/demo_dox_graph_algorithms_depth_first_search +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/link.d CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o -o ../bin/demo_dox_graph_algorithms_depth_first_search -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 33%] Built target demo_dox_graph_algorithms_depth_first_search +make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 33%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -155307,24 +155343,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 33%] Linking CXX executable ../bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.txt --verbose=1 [ 33%] Linking CXX executable ../bin/demo_dox_graph_algorithms_heaviest_increasing_subsequence cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm -lrt -lz -lbz2 +[ 33%] Linking CXX executable ../bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.d CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -o ../bin/demo_dox_graph_algorithms_heaviest_increasing_subsequence -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 33%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm +[ 33%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.d CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o -o ../bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 33%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.d CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o -o ../bin/demo_dox_graph_algorithms_heaviest_increasing_subsequence -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 33%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence +[ 33%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/DependInfo.cmake "--color=" @@ -155419,27 +155455,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -155519,6 +155534,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -155540,6 +155562,20 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -156040,19 +156076,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 34%] Building CXX object demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o -MF CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o.d -o CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp -[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_topological_sort -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.d CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -o ../bin/demo_dox_graph_algorithms_topological_sort -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Built target demo_dox_graph_algorithms_topological_sort -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Building CXX object demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -MF CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o.d -o CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_align/graph_align.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -156146,6 +156169,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_topological_sort +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> @@ -156160,6 +156185,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.d CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o -o ../bin/demo_dox_graph_algorithms_topological_sort -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 34%] Built target demo_dox_graph_algorithms_topological_sort +make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 34%] Building CXX object demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -MF CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o.d -o CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_align/graph_align.cpp +[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_transitive_closure +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -156244,6 +156282,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/link.d CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o -o ../bin/demo_dox_graph_algorithms_transitive_closure -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -156251,10 +156291,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 34%] Linking CXX executable ../bin/demo_dox_graph_algorithms_transitive_closure -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/link.d CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o -o ../bin/demo_dox_graph_algorithms_transitive_closure -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 34%] Built target demo_dox_graph_algorithms_transitive_closure make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -156522,8 +156558,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 35%] Linking CXX executable ../bin/demo_dox_graph_align_graph_align -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_align_graph_align.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -156562,6 +156596,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 35%] Linking CXX executable ../bin/demo_dox_graph_align_graph_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_graph_align_graph_align.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_graph_align_graph_align.dir/link.d CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o -o ../bin/demo_dox_graph_align_graph_align -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 35%] Built target demo_dox_graph_align_graph_align @@ -157232,6 +157268,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 35%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Built target demo_dox_index_UNUSED_shape_hash +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -157378,19 +157427,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 35%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target demo_dox_index_UNUSED_shape_hash -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -157634,13 +157670,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -157723,8 +157752,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 35%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash_next -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -157789,17 +157816,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash_next -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target demo_dox_index_UNUSED_shape_hash_next -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative_bottomUp.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -157816,6 +157839,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 35%] Linking CXX executable ../bin/demo_dox_index_UNUSED_shape_hash_next +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -158043,6 +158068,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o -o ../bin/demo_dox_index_UNUSED_shape_hash_next -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Built target demo_dox_index_UNUSED_shape_hash_next +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -MF CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d -o CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative_bottomUp.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -158515,6 +158551,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 35%] Linking CXX executable ../bin/demo_dox_index_begin_atEnd_representative +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -158667,6 +158705,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.d CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -o ../bin/demo_dox_index_begin_atEnd_representative -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Built target demo_dox_index_begin_atEnd_representative +make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -MF CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o.d -o CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -158767,32 +158816,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 35%] Linking CXX executable ../bin/demo_dox_index_begin_atEnd_representative -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.d CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o -o ../bin/demo_dox_index_begin_atEnd_representative -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target demo_dox_index_begin_atEnd_representative -make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -MF CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o.d -o CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp -[ 35%] Linking CXX executable ../bin/demo_dox_index_begin_atEnd_representative_bottomUp -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -o ../bin/demo_dox_index_begin_atEnd_representative_bottomUp -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target demo_dox_index_begin_atEnd_representative_bottomUp -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -MF CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d -o CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -158939,6 +158962,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 35%] Linking CXX executable ../bin/demo_dox_index_begin_atEnd_representative_bottomUp +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o -o ../bin/demo_dox_index_begin_atEnd_representative_bottomUp -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Built target demo_dox_index_begin_atEnd_representative_bottomUp +make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 35%] Building CXX object demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -MF CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d -o CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -159189,6 +159225,137 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1491 | _historyClear(it); + | ~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here + 18 | goRoot(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1731 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]' + 2236 | _clear(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' + 1492 | clear(it); // start in root node with range (0,infty) + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here + 18 | goRoot(it); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' + 1928 | while (_goDownChar(node, *p_begin)) + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1974 | return _goDownString(it, obj, dummy); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here + 12 | goDown(it, "ISSI"); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1898:23: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1898 | value(it) = nodeDesc; + | ~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Preorder]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1897:25: required from 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]' + 1897 | _historyPush(it); + | ~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' + 1928 | while (_goDownChar(node, *p_begin)) + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1974 | return _goDownString(it, obj, dummy); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' + 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here + 12 | goDown(it, "ISSI"); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1751:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] + 1751 | it._parentDesc = value(it); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' + 222 | VertexEsa(VertexEsa const &other): + | ^~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here + 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' + 515 | return begin(cont, Rooted()); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' + 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' + 789 | write(it, source); + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here + 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -159338,137 +159505,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1491 | _historyClear(it); - | ~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here - 18 | goRoot(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1731:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1731 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:137: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >; TSpec = TopDown<>]' - 2236 | _clear(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1492:14: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' - 1492 | clear(it); // start in root node with range (0,infty) - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:18:11: required from here - 18 | goRoot(it); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2230:19: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 2230 | value(it) = typename VertexDescriptor::Type(MinimalCtor()); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' - 1928 | while (_goDownChar(node, *p_begin)) - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1974 | return _goDownString(it, obj, dummy); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here - 12 | goDown(it, "ISSI"); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1898:23: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1898 | value(it) = nodeDesc; - | ~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyPush(Iter >, VSTree > >&) [with TText = String >; TIndexSpec = void; TSpec = Preorder]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1897:25: required from 'bool seqan::_goDownChar(Iter > >&, TValue) [with TIndex = Index > >; TSpec = Preorder; TValue = char]' - 1897 | _historyPush(it); - | ~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1928:27: required from 'bool seqan::_goDownString(Iter > >&, const TString&, TSize&) [with TIndex = Index > >; TSpec = Preorder; TString = char [5]; TSize = long unsigned int]' - 1928 | while (_goDownChar(node, *p_begin)) - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1974:29: required from 'bool seqan::_goDownObject(Iter > >&, const TObject&, True) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1974 | return _goDownString(it, obj, dummy); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1985:29: required from 'bool seqan::goDown(Iter > >&, const TObject&) [with TIndex = Index > >; TSpec = Preorder; TObject = char [5]]' - 1985 | return _goDownObject(it, obj, typename IsSequence::Type()); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:12:11: required from here - 12 | goDown(it, "ISSI"); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1751:24: warning: implicitly-declared 'constexpr seqan::VertexEsa& seqan::VertexEsa::operator=(const seqan::VertexEsa&)' is deprecated [-Wdeprecated-copy] - 1751 | it._parentDesc = value(it); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' - 222 | VertexEsa(VertexEsa const &other): - | ^~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here - 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: required from 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]' - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/iter_stream.h:515:17: required from 'typename seqan::DisableIf >, typename seqan::Iterator >::Type>::Type seqan::directionIterator(TContainer&, const TDirection&) [with TContainer = const Segment >, InfixSegment>; TDirection = Tag; typename DisableIf >, typename Iterator >::Type>::Type = Iter >, InfixSegment>, AdaptorIterator > >; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >]' - 515 | return begin(cont, Rooted()); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_stream.h:1085:87: required from 'typename seqan::EnableIf >, seqan::And >, seqan::Not::Type> > > > >, void>::Type seqan::write(TTarget&, const TContainer&) [with TTarget = Iter, StreamIterator > >; TContainer = Segment >, InfixSegment>; typename EnableIf >, And >, Not::Type> > > > >, void>::Type = void; typename Value::Type = char]' - 1085 | typename DirectionIterator::Type iter = directionIterator(cont, Input()); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:789:10: required from 'TStream& seqan::operator<<(TStream&, const Segment&) [with TStream = std::basic_ostream; THost = const String >; TSpec = InfixSegment]' - 789 | write(it, source); - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_range_goDown_representative_repLength.cpp:13:52: required from here - 13 | std::cout << "The string " << representative(it) << " occurs " << range(it).i2 - range(it).i1 << - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment >, seqan::InfixSegment>::Segment(const seqan::Segment >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -159712,6 +159748,14 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 36%] Linking CXX executable ../bin/demo_dox_index_begin_range_goDown_representative_repLength +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.d CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -o ../bin/demo_dox_index_begin_range_goDown_representative_repLength -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 36%] Built target demo_dox_index_begin_range_goDown_representative_repLength +make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -159719,6 +159763,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 36%] Building CXX object demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -MF CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o.d -o CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/find_repeats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' @@ -159847,19 +159896,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 36%] Linking CXX executable ../bin/demo_dox_index_begin_range_goDown_representative_repLength -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.d CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o -o ../bin/demo_dox_index_begin_range_goDown_representative_repLength -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Built target demo_dox_index_begin_range_goDown_representative_repLength -make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Building CXX object demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -MF CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o.d -o CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/find_repeats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -159952,8 +159988,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 36%] Linking CXX executable ../bin/demo_dox_index_counting -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_counting.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public std::unary_function @@ -159973,17 +160007,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_counting.dir/link.d CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -o ../bin/demo_dox_index_counting -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Built target demo_dox_index_counting -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Building CXX object demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -MF CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d -o CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -160022,6 +160045,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 36%] Linking CXX executable ../bin/demo_dox_index_counting +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_counting.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_counting.dir/link.d CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o -o ../bin/demo_dox_index_counting -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 36%] Built target demo_dox_index_counting +make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 36%] Building CXX object demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -MF CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d -o CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -160296,6 +160332,52 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -160442,52 +160524,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: @@ -172091,8 +172127,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 38%] Linking CXX executable ../bin/demo_dox_index_open_save -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_open_save.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -172100,9 +172134,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_open_save.dir/link.d CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o -o ../bin/demo_dox_index_open_save -lrt -lz -lbz2 +[ 38%] Linking CXX executable ../bin/demo_dox_misc_enumerate_strings +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_enumerate_strings.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_misc_enumerate_strings.dir/link.d CMakeFiles/demo_dox_misc_enumerate_strings.dir/dox/misc/enumerate_strings.cpp.o -o ../bin/demo_dox_misc_enumerate_strings -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Built target demo_dox_index_open_save +[ 38%] Built target demo_dox_misc_enumerate_strings make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/DependInfo.cmake "--color=" @@ -172124,11 +172160,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 39%] Building CXX object demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o -MF CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o.d -o CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/interval_tree_example.cpp -[ 39%] Linking CXX executable ../bin/demo_dox_misc_enumerate_strings -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_enumerate_strings.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_misc_enumerate_strings.dir/link.d CMakeFiles/demo_dox_misc_enumerate_strings.dir/dox/misc/enumerate_strings.cpp.o -o ../bin/demo_dox_misc_enumerate_strings -lrt -lz -lbz2 +[ 39%] Linking CXX executable ../bin/demo_dox_index_open_save +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_index_open_save.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_index_open_save.dir/link.d CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o -o ../bin/demo_dox_index_open_save -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_misc_enumerate_strings +[ 39%] Built target demo_dox_index_open_save make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/DependInfo.cmake "--color=" @@ -172271,6 +172307,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 39%] Building CXX object demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o -MF CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o.d -o CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp +[ 39%] Linking CXX executable ../bin/demo_dox_misc_interval_tree_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp:1: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -172348,8 +172386,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 39%] Linking CXX executable ../bin/demo_dox_misc_interval_tree_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp:2: @@ -172424,17 +172460,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/cyclic_shape.h:203:5: note: because 'seqan::CyclicShape > >' has user-provided 'seqan::CyclicShape > >::CyclicShape(const seqan::CyclicShape > >&)' 203 | CyclicShape(CyclicShape const & other) : | ^~~~~~~~~~~ -[ 39%] Linking CXX executable ../bin/demo_dox_modifier_cyclic_shape -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_cyclic_shape.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_cyclic_shape.dir/link.d CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o -o ../bin/demo_dox_modifier_cyclic_shape -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_modifier_cyclic_shape -make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -172509,8 +172534,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 39%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -172666,6 +172689,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/cyclic_shape.h:203:5: note: because 'seqan::CyclicShape > >' has user-provided 'seqan::CyclicShape > >::CyclicShape(const seqan::CyclicShape > >&)' 203 | CyclicShape(CyclicShape const & other) : | ^~~~~~~~~~~ +[ 39%] Linking CXX executable ../bin/demo_dox_modifier_cyclic_shape +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_cyclic_shape.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_cyclic_shape.dir/link.d CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o -o ../bin/demo_dox_modifier_cyclic_shape -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 39%] Built target demo_dox_modifier_cyclic_shape +make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 39%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp +[ 39%] Linking CXX executable ../bin/demo_dox_modifier_cyclic_shape_snippets +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.d CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/dox/modifier/cyclic_shape_snippets.cpp.o -o ../bin/demo_dox_modifier_cyclic_shape_snippets -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 39%] Built target demo_dox_modifier_cyclic_shape_snippets +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 39%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -172760,32 +172809,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 39%] Linking CXX executable ../bin/demo_dox_modifier_cyclic_shape_snippets -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.d CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/dox/modifier/cyclic_shape_snippets.cpp.o -o ../bin/demo_dox_modifier_cyclic_shape_snippets -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_modifier_cyclic_shape_snippets -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp -[ 39%] Linking CXX executable ../bin/demo_dox_modifier_modified_string -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_modified_string.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_modified_string.dir/link.d CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -o ../bin/demo_dox_modifier_modified_string -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_modifier_modified_string -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -172883,6 +172906,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 39%] Linking CXX executable ../bin/demo_dox_modifier_modified_string +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_modified_string.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_modified_string.dir/link.d CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o -o ../bin/demo_dox_modifier_modified_string -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 39%] Built target demo_dox_modifier_modified_string +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Building CXX object demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -MF CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o.d -o CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp [ 40%] Linking CXX executable ../bin/demo_dox_modifier_modified_string_mod_view cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.d CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o -o ../bin/demo_dox_modifier_modified_string_mod_view -lrt -lz -lbz2 @@ -173000,10 +173036,10 @@ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Building CXX object demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -MF CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o.d -o CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_modifier_modified_string_nested.dir/link.d CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o -o ../bin/demo_dox_modifier_modified_string_nested -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Building CXX object demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -MF CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o.d -o CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp [ 40%] Built target demo_dox_modifier_modified_string_nested make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -173013,6 +173049,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 40%] Building CXX object demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o -MF CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o.d -o CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/pipe/pool_sorter.cpp +[ 40%] Linking CXX executable ../bin/demo_dox_parallel_splitter_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_parallel_splitter_example.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -173092,8 +173130,12 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 40%] Linking CXX executable ../bin/demo_dox_parallel_splitter_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_parallel_splitter_example.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_parallel_splitter_example.dir/link.d CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -o ../bin/demo_dox_parallel_splitter_example -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Built target demo_dox_parallel_splitter_example +make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -173101,6 +173143,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Building CXX object demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -MF CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o.d -o CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public std::unary_function @@ -173164,30 +173211,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_parallel_splitter_example.dir/link.d CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o -o ../bin/demo_dox_parallel_splitter_example -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Built target demo_dox_parallel_splitter_example -make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Building CXX object demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -MF CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o.d -o CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp -[ 40%] Linking CXX executable ../bin/demo_dox_pipe_pool_sorter -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.d CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o -o ../bin/demo_dox_pipe_pool_sorter -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Built target demo_dox_pipe_pool_sorter -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Building CXX object demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -MF CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o.d -o CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_add_seed.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -173282,6 +173305,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 40%] Linking CXX executable ../bin/demo_dox_pipe_pool_sorter +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.d CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o -o ../bin/demo_dox_pipe_pool_sorter -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Built target demo_dox_pipe_pool_sorter +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 40%] Building CXX object demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -MF CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o.d -o CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_add_seed.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -173726,11 +173762,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 40%] Linking CXX executable ../bin/demo_dox_seeds_seeds_add_seed -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.d CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -o ../bin/demo_dox_seeds_seeds_add_seed -lrt -lz -lbz2 +[ 40%] Linking CXX executable ../bin/demo_dox_score_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_score_score.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_score_score.dir/link.d CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -o ../bin/demo_dox_score_score -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Built target demo_dox_seeds_seeds_add_seed +[ 40%] Built target demo_dox_score_score make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/DependInfo.cmake "--color=" @@ -173739,11 +173775,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 40%] Building CXX object demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -MF CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o.d -o CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp -[ 40%] Linking CXX executable ../bin/demo_dox_score_score -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_score_score.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_score_score.dir/link.d CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o -o ../bin/demo_dox_score_score -lrt -lz -lbz2 +[ 40%] Linking CXX executable ../bin/demo_dox_seeds_seeds_add_seed +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.d CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o -o ../bin/demo_dox_seeds_seeds_add_seed -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 40%] Built target demo_dox_score_score +[ 40%] Built target demo_dox_seeds_seeds_add_seed make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/DependInfo.cmake "--color=" @@ -173838,6 +173874,99 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -173864,6 +173993,63 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -173944,6 +174130,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -173981,6 +174176,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -174145,193 +174347,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -174407,6 +174422,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -174559,6 +174581,20 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -174588,13 +174624,13 @@ make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/DependInfo.cmake "--color=" +[ 41%] Linking CXX executable ../bin/demo_dox_seeds_seeds_extension +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 41%] Building CXX object demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o -MF CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o.d -o CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp -[ 41%] Linking CXX executable ../bin/demo_dox_seeds_seeds_extension -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.d CMakeFiles/demo_dox_seeds_seeds_extension.dir/dox/seeds/seeds_extension.cpp.o -o ../bin/demo_dox_seeds_seeds_extension -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 41%] Built target demo_dox_seeds_seeds_extension @@ -174708,25 +174744,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -174814,6 +174831,32 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -174827,13 +174870,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 41%] Linking CXX executable ../bin/demo_dox_sequence_UNUSED_infix +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -174880,6 +174918,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.d CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/dox/sequence/UNUSED_infix.cpp.o -o ../bin/demo_dox_sequence_UNUSED_infix -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Built target demo_dox_sequence_UNUSED_infix +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Building CXX object demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -MF CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o.d -o CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/UNUSED_prefix.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -174957,19 +175006,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 41%] Linking CXX executable ../bin/demo_dox_sequence_UNUSED_infix -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.d CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/dox/sequence/UNUSED_infix.cpp.o -o ../bin/demo_dox_sequence_UNUSED_infix -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Built target demo_dox_sequence_UNUSED_infix -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Building CXX object demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -MF CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o.d -o CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/UNUSED_prefix.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -175092,8 +175128,6 @@ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Building CXX object demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -MF CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o.d -o CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/container_view_zip.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -175174,6 +175208,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 41%] Building CXX object demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -MF CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o.d -o CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/container_view_zip.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -175192,6 +175228,15 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/link.d CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o -o ../bin/demo_dox_sequence_UNUSED_suffix -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Built target demo_dox_sequence_UNUSED_suffix +make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 41%] Building CXX object demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -MF CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o.d -o CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/segment.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -175251,7 +175296,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 41%] Built target demo_dox_sequence_UNUSED_suffix /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 264 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -175264,15 +175308,12 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/depend /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 287 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -175280,11 +175321,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 41%] Building CXX object demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -MF CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o.d -o CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/segment.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -175440,28 +175476,28 @@ | ^~~~~~~~ [ 43%] Linking CXX executable ../bin/demo_dox_sequence_container_view_zip cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.txt --verbose=1 +[ 43%] Linking CXX executable ../bin/demo_dox_sequence_segment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_segment.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.d CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o -o ../bin/demo_dox_sequence_container_view_zip -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_segment.dir/link.d CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -o ../bin/demo_dox_sequence_segment -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 43%] Built target demo_dox_sequence_container_view_zip make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Building CXX object demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -MF CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o.d -o CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string.cpp -[ 43%] Linking CXX executable ../bin/demo_dox_sequence_segment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_segment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_segment.dir/link.d CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o -o ../bin/demo_dox_sequence_segment -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 43%] Built target demo_dox_sequence_segment make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 43%] Building CXX object demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -MF CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o.d -o CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string.cpp [ 43%] Building CXX object demos/CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o -MF CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o.d -o CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, @@ -175636,8 +175672,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 43%] Linking CXX executable ../bin/demo_dox_sequence_string -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_string.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -175645,9 +175679,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_string.dir/link.d CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -o ../bin/demo_dox_sequence_string -lrt -lz -lbz2 +[ 43%] Linking CXX executable ../bin/demo_dox_sequence_string2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_string2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_string2.dir/link.d CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o -o ../bin/demo_dox_sequence_string2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Built target demo_dox_sequence_string +[ 43%] Built target demo_dox_sequence_string2 make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/DependInfo.cmake "--color=" @@ -175656,6 +175692,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 43%] Building CXX object demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -MF CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o.d -o CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp +[ 43%] Linking CXX executable ../bin/demo_dox_sequence_string +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_string.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_string.dir/link.d CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o -o ../bin/demo_dox_sequence_string -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 43%] Built target demo_dox_sequence_string +make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 43%] Building CXX object demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o -MF CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o.d -o CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -175743,8 +175792,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 43%] Linking CXX executable ../bin/demo_dox_sequence_string2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_string2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -175752,30 +175799,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_string2.dir/link.d CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o -o ../bin/demo_dox_sequence_string2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Built target demo_dox_sequence_string2 -make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Building CXX object demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o -MF CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o.d -o CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp -[ 43%] Linking CXX executable ../bin/demo_dox_sequence_stringset -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_stringset.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_stringset.dir/link.d CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -o ../bin/demo_dox_sequence_stringset -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Built target demo_dox_sequence_stringset -make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 43%] Building CXX object demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -MF CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o.d -o CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/load_markov_model.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -175925,6 +175948,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 43%] Linking CXX executable ../bin/demo_dox_sequence_stringset +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_sequence_stringset.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_sequence_stringset.dir/link.d CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o -o ../bin/demo_dox_sequence_stringset -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 43%] Built target demo_dox_sequence_stringset +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 43%] Building CXX object demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -MF CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o.d -o CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/load_markov_model.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -176168,6 +176204,277 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/statistics.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:5: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:6: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here + 18 | if (!open(seqFile, toCString(bgPath))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here + 18 | if (!open(seqFile, toCString(bgPath))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here + 18 | if (!open(seqFile, toCString(bgPath))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here + 18 | if (!open(seqFile, toCString(bgPath))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here + 18 | if (!open(seqFile, toCString(bgPath))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -176253,13 +176560,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -176324,75 +176624,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/statistics.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:5: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:6: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -176636,56 +176867,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here - 18 | if (!open(seqFile, toCString(bgPath))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -176693,128 +176874,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here - 18 | if (!open(seqFile, toCString(bgPath))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here - 18 | if (!open(seqFile, toCString(bgPath))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here - 18 | if (!open(seqFile, toCString(bgPath))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/statistics.h:40, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:47, @@ -176831,29 +176890,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/statistics/build_markov_model.cpp:18:14: required from here - 18 | if (!open(seqFile, toCString(bgPath))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:54: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_base.h:159:20: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 159 | AFScore(unsigned k, unsigned m, bool verbose_ = false) : @@ -177111,13 +177147,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -177198,6 +177227,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -177486,8 +177522,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 44%] Linking CXX executable ../bin/demo_dox_statistics_build_markov_model -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_statistics_build_markov_model.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -177684,6 +177718,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 44%] Linking CXX executable ../bin/demo_dox_statistics_build_markov_model +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_dox_statistics_build_markov_model.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_dox_statistics_build_markov_model.dir/link.d CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o -o ../bin/demo_dox_statistics_build_markov_model -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target demo_dox_statistics_build_markov_model @@ -177786,6 +177822,12 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char [2]]', inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.cpp:42:29: @@ -177812,12 +177854,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Building CXX object demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o -MF CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o.d -o CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -177965,106 +178001,6 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_align_gaps_clipping.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_align_gaps_clipping.dir/link.d CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o -o ../bin/demo_howto_align_gaps_clipping -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Built target demo_howto_align_gaps_clipping -make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Building CXX object demos/CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -MF CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o.d -o CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -178292,14 +178228,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 44%] Built target demo_howto_align_gaps_clipping +make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 44%] Building CXX object demos/CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -MF CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o.d -o CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -178330,6 +178267,105 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -178637,13 +178673,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Building CXX object demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o -MF CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o.d -o CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/efficiently_import_sequences.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:61: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -178872,8 +178901,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 44%] Linking CXX executable ../bin/demo_howto_custom_file_endings -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_custom_file_endings.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -179019,6 +179046,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:61: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 44%] Linking CXX executable ../bin/demo_howto_custom_file_endings +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_custom_file_endings.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_custom_file_endings.dir/link.d CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o -o ../bin/demo_howto_custom_file_endings -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target demo_howto_custom_file_endings @@ -179630,6 +179666,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 44%] Linking CXX executable ../bin/demo_howto_efficiently_import_sequences +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_efficiently_import_sequences.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -179759,6 +179797,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_efficiently_import_sequences.dir/link.d CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o -o ../bin/demo_howto_efficiently_import_sequences -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 44%] Built target demo_howto_efficiently_import_sequences +make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/depend /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -179785,6 +179827,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Building CXX object demos/CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o -MF CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o.d -o CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -179871,19 +179920,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 44%] Linking CXX executable ../bin/demo_howto_efficiently_import_sequences -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_efficiently_import_sequences.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_efficiently_import_sequences.dir/link.d CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o -o ../bin/demo_howto_efficiently_import_sequences -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 44%] Built target demo_howto_efficiently_import_sequences -make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Building CXX object demos/CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o -MF CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o.d -o CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -180086,19 +180122,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 45%] Linking CXX executable ../bin/demo_howto_filter_similar_sequences -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_filter_similar_sequences.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_filter_similar_sequences.dir/link.d CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o -o ../bin/demo_howto_filter_similar_sequences -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_howto_filter_similar_sequences -make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Building CXX object demos/CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -MF CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o.d -o CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/using_zip_iterator.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::read(Score >&, TSourceIter&, const ScoreMatrixFile&) [with TValue = int; TSequenceValue = SimpleType; TSpec = Tag; TSourceIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score/score_matrix_io.h:140:79, @@ -180115,6 +180138,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 45%] Linking CXX executable ../bin/demo_howto_filter_similar_sequences +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_filter_similar_sequences.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_filter_similar_sequences.dir/link.d CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o -o ../bin/demo_howto_filter_similar_sequences -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target demo_howto_filter_similar_sequences +make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Building CXX object demos/CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -MF CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o.d -o CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/using_zip_iterator.cpp +[ 45%] Linking CXX executable ../bin/demo_howto_scores_load_score +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_scores_load_score.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_scores_load_score.dir/link.d CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o -o ../bin/demo_howto_scores_load_score -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target demo_howto_scores_load_score +make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Building CXX object demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -MF CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o.d -o CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -180202,32 +180251,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 45%] Linking CXX executable ../bin/demo_howto_scores_load_score -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_scores_load_score.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_scores_load_score.dir/link.d CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o -o ../bin/demo_howto_scores_load_score -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_howto_scores_load_score -make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Building CXX object demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -MF CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o.d -o CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tabix_io/tabix_vcf.cpp -[ 45%] Linking CXX executable ../bin/demo_howto_using_zip_iterator -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_using_zip_iterator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_using_zip_iterator.dir/link.d CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -o ../bin/demo_howto_using_zip_iterator -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_howto_using_zip_iterator -make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:45, @@ -180369,6 +180392,30 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 45%] Linking CXX executable ../bin/demo_howto_using_zip_iterator +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_howto_using_zip_iterator.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_howto_using_zip_iterator.dir/link.d CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o -o ../bin/demo_howto_using_zip_iterator -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target demo_howto_using_zip_iterator +make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/base.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = const char*]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = const char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/base.cpp:2: @@ -180452,6 +180499,16 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -180531,32 +180588,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' 105 | Iter(Iter const & other_) : | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = const char*]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = const char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 45%] Linking CXX executable ../bin/demo_tutorial_a_first_example_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_base.dir/link.d CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o -o ../bin/demo_tutorial_a_first_example_base -lrt -lz -lbz2 +[ 45%] Linking CXX executable ../bin/demo_tabix_io_tabix_vcf +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.d CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -o ../bin/demo_tabix_io_tabix_vcf -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_tutorial_a_first_example_base +[ 45%] Built target demo_tabix_io_tabix_vcf make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/DependInfo.cmake "--color=" @@ -180565,11 +180601,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 45%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.cpp -[ 45%] Linking CXX executable ../bin/demo_tabix_io_tabix_vcf -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.d CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o -o ../bin/demo_tabix_io_tabix_vcf -lrt -lz -lbz2 +[ 45%] Linking CXX executable ../bin/demo_tutorial_a_first_example_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_base.dir/link.d CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o -o ../bin/demo_tutorial_a_first_example_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_tabix_io_tabix_vcf +[ 45%] Built target demo_tutorial_a_first_example_base make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/DependInfo.cmake "--color=" @@ -180668,19 +180704,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 45%] Linking CXX executable ../bin/demo_tutorial_a_first_example_basic_code -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.d CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o -o ../bin/demo_tutorial_a_first_example_basic_code -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Built target demo_tutorial_a_first_example_basic_code -make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 45%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp:3: @@ -180771,6 +180794,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 45%] Linking CXX executable ../bin/demo_tutorial_a_first_example_basic_code +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.d CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o -o ../bin/demo_tutorial_a_first_example_basic_code -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target demo_tutorial_a_first_example_basic_code +make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 45%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp [ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_basic_code_detailed cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/link.d CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o -o ../bin/demo_tutorial_a_first_example_basic_code_detailed -lrt -lz -lbz2 @@ -180889,30 +180925,6 @@ | ^~~~~~~~~~~~~~ [ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_code_encapsulation cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.d CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -o ../bin/demo_tutorial_a_first_example_code_encapsulation -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 46%] Built target demo_tutorial_a_first_example_code_encapsulation -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 46%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/example_tempSubclassing.cpp -[ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_example_tempSubclassing -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/link.d CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o -o ../bin/demo_tutorial_a_first_example_example_tempSubclassing -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 46%] Built target demo_tutorial_a_first_example_example_tempSubclassing -make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 46%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -181005,6 +181017,30 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.d CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o -o ../bin/demo_tutorial_a_first_example_code_encapsulation -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Built target demo_tutorial_a_first_example_code_encapsulation +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/example_tempSubclassing.cpp +[ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_example_tempSubclassing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/link.d CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o -o ../bin/demo_tutorial_a_first_example_example_tempSubclassing -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Built target demo_tutorial_a_first_example_example_tempSubclassing +make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp [ 46%] Linking CXX executable ../bin/demo_tutorial_a_first_example_example_tags_for_print cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/link.d CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o -o ../bin/demo_tutorial_a_first_example_example_tags_for_print -lrt -lz -lbz2 @@ -181020,7 +181056,7 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -181030,7 +181066,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -181110,7 +181146,7 @@ | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -181120,7 +181156,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -181314,6 +181350,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp:3: @@ -181404,11 +181442,9 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/tutorial/a_first_example/solution_3.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_3 -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 47%] Built target demo_tutorial_a_first_example_solution_3 +[ 47%] Built target demo_tutorial_a_first_example_solution_2 make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/DependInfo.cmake "--color=" @@ -181417,11 +181453,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 47%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/tutorial/a_first_example/solution_4.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/tutorial/a_first_example/solution_4.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/tutorial/a_first_example/solution_4.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/tutorial/a_first_example/solution_4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_4.cpp -[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_2 -lrt -lz -lbz2 +[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/tutorial/a_first_example/solution_3.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_3 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 47%] Built target demo_tutorial_a_first_example_solution_2 +[ 47%] Built target demo_tutorial_a_first_example_solution_3 make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/DependInfo.cmake "--color=" @@ -181612,8 +181648,6 @@ | ^~~~~~~~~~~~~~ [ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_4 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/link.txt --verbose=1 -[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_4_templateSubclassing -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/tutorial/a_first_example/solution_4.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_4 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target demo_tutorial_a_first_example_solution_4 @@ -181625,6 +181659,8 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 47%] Building CXX object demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/tutorial/a_first_example/solution_5.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/tutorial/a_first_example/solution_5.cpp.o -MF CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/tutorial/a_first_example/solution_5.cpp.o.d -o CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/tutorial/a_first_example/solution_5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp +[ 47%] Linking CXX executable ../bin/demo_tutorial_a_first_example_solution_4_templateSubclassing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/link.d CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/tutorial/a_first_example/solution_4_templateSubclassing.cpp.o -o ../bin/demo_tutorial_a_first_example_solution_4_templateSubclassing -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target demo_tutorial_a_first_example_solution_4_templateSubclassing @@ -181719,6 +181755,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp:4: @@ -181795,13 +181838,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -181936,6 +181972,48 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:138:20: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 138 | it = begin(row1); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:139:21: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] + 139 | itEnd = end(row1); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' + 91 | Iter(Iter const & other) : + | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp:3: @@ -182058,53 +182136,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:138:20: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 138 | it = begin(row1); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp:139:21: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >& seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >::operator=(const seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >&)' is deprecated [-Wdeprecated-copy] - 139 | itEnd = end(row1); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' - 91 | Iter(Iter const & other) : - | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_align_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/link.d CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/tutorial/alignment/align_assignment1.cpp.o -o ../bin/demo_tutorial_alignment_align_assignment1 -lrt -lz -lbz2 +[ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_align.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_align.dir/link.d CMakeFiles/demo_tutorial_alignment_align.dir/tutorial/alignment/align.cpp.o -o ../bin/demo_tutorial_alignment_align -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 48%] Built target demo_tutorial_alignment_align_assignment1 +[ 48%] Built target demo_tutorial_alignment_align make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/DependInfo.cmake "--color=" @@ -182113,11 +182149,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 48%] Building CXX object demos/CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o -MF CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o.d -o CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp -[ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_align -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_align.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_align.dir/link.d CMakeFiles/demo_tutorial_alignment_align.dir/tutorial/alignment/align.cpp.o -o ../bin/demo_tutorial_alignment_align -lrt -lz -lbz2 +[ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_align_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/link.d CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/tutorial/alignment/align_assignment1.cpp.o -o ../bin/demo_tutorial_alignment_align_assignment1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 48%] Built target demo_tutorial_alignment_align +[ 48%] Built target demo_tutorial_alignment_align_assignment1 make -f demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/DependInfo.cmake "--color=" @@ -182372,22 +182408,22 @@ | ^~~~~~~~~~~~~~~ [ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_graph cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_graph.dir/link.txt --verbose=1 +[ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_graph_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_graph.dir/link.d CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o -o ../bin/demo_tutorial_alignment_graph -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 48%] Built target demo_tutorial_alignment_graph make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.d CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o -o ../bin/demo_tutorial_alignment_graph_assignment1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 48%] Built target demo_tutorial_alignment_graph_assignment1 [ 48%] Building CXX object demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -MF CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o.d -o CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp -[ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_graph_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.d CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o -o ../bin/demo_tutorial_alignment_graph_assignment1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 48%] Built target demo_tutorial_alignment_graph_assignment1 make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/DependInfo.cmake "--color=" @@ -182640,30 +182676,30 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_matrix +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.txt --verbose=1 [ 48%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_affine_dgs cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_affine_dgs -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_matrix -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 48%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/depend +[ 48%] Built target demo_tutorial_alignment_scoring_scheme_matrix +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 49%] Building CXX object demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -MF CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o.d -o CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp -[ 49%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_matrix -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_matrix -lrt -lz -lbz2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 49%] Built target demo_tutorial_alignment_scoring_scheme_matrix -make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 49%] Building CXX object demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -MF CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o.d -o CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp [ 49%] Building CXX object demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o -MF CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o.d -o CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp [ 49%] Linking CXX executable ../bin/demo_tutorial_alphabets_assignment_1 @@ -182840,11 +182876,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 49%] Building CXX object demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -MF CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o.d -o CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp -[ 49%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_simple -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_simple -lrt -lz -lbz2 +[ 49%] Linking CXX executable ../bin/demo_tutorial_alphabets_example_size +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -o ../bin/demo_tutorial_alphabets_example_size -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 49%] Built target demo_tutorial_alignment_scoring_scheme_simple +[ 49%] Built target demo_tutorial_alphabets_example_size make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/DependInfo.cmake "--color=" @@ -182853,11 +182889,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 49%] Building CXX object demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o -MF CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o.d -o CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp -[ 49%] Linking CXX executable ../bin/demo_tutorial_alphabets_example_size -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o -o ../bin/demo_tutorial_alphabets_example_size -lrt -lz -lbz2 +[ 49%] Linking CXX executable ../bin/demo_tutorial_alignment_scoring_scheme_simple +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.d CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o -o ../bin/demo_tutorial_alignment_scoring_scheme_simple -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 49%] Built target demo_tutorial_alphabets_example_size +[ 49%] Built target demo_tutorial_alignment_scoring_scheme_simple make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/DependInfo.cmake "--color=" @@ -182874,19 +182910,19 @@ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 50%] Built target demo_tutorial_basic_techniques_base make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/depend +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_background_and_motivation_example.dir/link.d CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o -o ../bin/demo_tutorial_background_and_motivation_example -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 50%] Building CXX object demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o -MF CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o.d -o CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_background_and_motivation_example.dir/link.d CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o -o ../bin/demo_tutorial_background_and_motivation_example -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 50%] Built target demo_tutorial_background_and_motivation_example make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/DependInfo.cmake "--color=" +[ 50%] Building CXX object demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o -MF CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o.d -o CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -183238,6 +183274,52 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here + 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here + 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -183326,52 +183408,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here - 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp:7:84: required from here - 7 | BedFileIn bedIn(toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -183554,6 +183590,52 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here + 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here + 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -183635,29 +183717,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here - 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -183665,29 +183724,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bed_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp:10:14: required from here - 10 | if (!open(bedIn, toCString(getAbsolutePath("demos/tutorial/bed_io/example.bed")))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -183902,6 +183938,29 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = BlastTabular_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = BlastIOContext<>; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = seqan::BlastIOContext<>]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp:21:46: required from here + 21 | BlastTabularFileIn file(argv[1]); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/blast.h:56, @@ -183986,29 +184045,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = BlastTabular_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = BlastIOContext<>; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = seqan::BlastIOContext<>]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp:21:46: required from here - 21 | BlastTabularFileIn file(argv[1]); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -184417,8 +184453,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 52%] Linking CXX executable ../bin/demo_tutorial_blast_io_read_assignment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -184445,8 +184479,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.d CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -o ../bin/demo_tutorial_blast_io_read_assignment -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -184484,10 +184516,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 52%] Built target demo_tutorial_blast_io_read_assignment -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -184500,11 +184528,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -MF CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o.d -o CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -184657,6 +184680,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 52%] Linking CXX executable ../bin/demo_tutorial_blast_io_read_assignment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -184664,6 +184689,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.d CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o -o ../bin/demo_tutorial_blast_io_read_assignment -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_blast_io_read_assignment +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -MF CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o.d -o CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' @@ -184880,90 +184916,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:223: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/find_pigeonhole.h: In instantiation of 'void seqan::_patternInit(Pattern >&, TFloat) [with TIndex = Index, Alloc<> >, InfixSegment>, Dependent > >, IndexQGram, OneGappedShape>, Tag > >; TFloat = double; TSpec = void]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlap_info_computation.h:370:17: required from 'void seqan::OverlapInfoComputation_::buildAllToAllOverlapInfos(std::vector&, const std::vector&) const [with TFragmentStore = seqan::FragmentStore<>]' @@ -184991,17 +184943,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/shape_onegapped.h:107:9: note: because 'seqan::Shape, seqan::OneGappedShape>' has user-provided 'seqan::Shape::Shape(const seqan::Shape&) [with TValue = seqan::SimpleType]' 107 | Shape(Shape const &other): | ^~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:55, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find/find_base.h: In instantiation of 'typename seqan::Parameter_::Type seqan::container(Finder&) [with THaystack = const Segment, Alloc<> >, InfixSegment>; TSpec = Pigeonhole<>; typename Parameter_::Type = Segment, Alloc<> >, InfixSegment>]': @@ -185033,21 +184974,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:105: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h: In instantiation of 'static void seqan::AppendValueToString_::appendValue_(T&, TValue&&) [with T = seqan::String, seqan::Alloc<> >, seqan::InfixSegment>, seqan::Alloc<> >; TValue = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&; TExpand = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1366:54: required from 'void seqan::appendValue(String&, TValue&&, Tag) [with TTargetValue = Segment, Alloc<> >, InfixSegment>; TTargetSpec = Alloc<>; TValue = const Segment, Alloc<> >, InfixSegment>&; TExpand = TagGenerous_]' @@ -185142,19 +185068,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' @@ -185256,14 +185169,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervalsExcludeTouching(String&, const Graph&, const TPropertyMap&, TValue) [with TSpec = Directed >; TPropertyMap = String > > > >; TValue = long unsigned int; TCargo = Pair >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align/graph_algorithm_refine_exact_iterative.h:571:49: required from 'void seqan::matchRefinement(TAlignmentString&, StringSet&, TScore&, TOutGraph&, typename Size::Type>::Type, TAnnotation&, Tag) [with TAlignmentString = String >; TAnnotation = bool; TOutGraph = Graph, Alloc<> >, InfixSegment>, Dependent > >, unsigned int, Tag > >; TSequence = Segment, Alloc<> >, InfixSegment>; TSetSpec = Dependent >; TScore = unsigned int; TTagSpec = TagExactRefinement_; typename Size::Type>::Type = long unsigned int; typename Value::Type = Fragment<>]' @@ -185587,43 +185492,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -185661,22 +185529,101 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp:4: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h:304:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 304 | public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -186137,15 +186084,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 88 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:99:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::unary_function >, bool> +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function @@ -186193,6 +186135,266 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:520:23: required from 'typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' + 520 | return _endDefault(me, tag_); + | ~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:650:29: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' + 650 | if (seqHIterBegin == end(seqH, Rooted()) - 1) + | ~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' + 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 288 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlapper.h:354:24: required from 'bool seqan::Overlapper_::computeOverlap(seqan::Overlap_&, TFragments&, const TSequence&, const TSequence&, const seqan::OverlapCandidate_&) const [with TFragments = seqan::String >; TSequence = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 354 | globalAlignment(align, scoringScheme, alignConfig, lDiag, uDiag, Gotoh()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_builder.h:138:38: required from 'void seqan::ConsensusBuilder_::computeOverlaps(TFragments&, seqan::String&, seqan::Graph >&, const TFragmentStore&, const std::vector&) const [with TFragmentStore = seqan::FragmentStore<>; TFragments = seqan::String >]' + 138 | if (overlapper.computeOverlap(ovl, frags, store.readSeqStore[it->seq0], store.readSeqStore[it->seq1], + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 139 | OverlapCandidate_(it->seq0, it->seq1, it->pos1 - it->numErrors, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 140 | it->pos1 + it->numErrors))) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_builder.h:370:5: required from 'void seqan::ConsensusBuilder_::run(TFragmentStore&, const std::vector&) const [with TFragmentStore = seqan::FragmentStore<>]' + 370 | computeOverlaps(fragments, scores, distances, store, overlapInfos); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner.h:170:20: required from 'void seqan::ConsensusAligner_::run() [with TFragmentStore = seqan::FragmentStore<>]' + 170 | consBuilder.run(store, overlapInfos); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:141:16: required from 'void seqan::consensusAlignment(FragmentStore&, const ConsensusAlignmentOptions&) [with TSpec = void; TConfig = FragmentStoreConfig]' + 141 | aligner.run(); + | ~~~~~~~~~~~^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp:51:23: required from here + 51 | consensusAlignment(store, options); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:486:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 486 | return TIterator(me, end(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:381:19: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' + 381 | TSeqVIterator iter = seqBegin; + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:453:18: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' + 453 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqHValue, seqVValue, seqBegin, seqEnd, + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 454 | scoringScheme, cacheDiag, cacheVert, TColumnDescriptor{}, TDPProfile{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:515:18: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >, Score > > >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 515 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 516 | sequenceEntryForScore(scoringScheme, seqH, 0), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 517 | sequenceEntryForScore(scoringScheme, seqV, 0), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 518 | seqVBegin, seqVEnd, scoringScheme, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 519 | MetaColumnDescriptor(), dpProfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >, Score > > >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreValue2 = int; TScoreSpec = WeightedConsensusScore >, Score > >; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' + 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 288 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:657:36: required from 'void seqan::_readToProfileAlignment(TProfileGaps&, TReadGaps&, const TConsensusScore&, const TAlignConfig&, int&, int&, bool) [with TProfileGaps = Gaps >, Alloc<> >, Tag >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, Tag >; TConsensusScore = Score >, Score > > >; TAlignConfig = AlignConfig]' + 657 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 658 | NeedlemanWunsch()); + | ~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1209:36: required from 'void seqan::AnsonMyersRealignmentRound_::run(unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' + 1209 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, linear); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:685:18: required from 'void seqan::AnsonMyersRealigner_::run(unsigned int, unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' + 685 | round.run(windowBegin, windowEnd); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1801:18: required from 'void seqan::reAlignment(FragmentStore&, unsigned int, unsigned int, unsigned int, bool, unsigned int, unsigned int, bool, bool) [with TSpec = void; TConfig = FragmentStoreConfig]' + 1801 | realigner.run(contigID, windowBegin, windowEnd); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:145:24: required from 'void seqan::consensusAlignment(FragmentStore&, const ConsensusAlignmentOptions&) [with TSpec = void; TConfig = FragmentStoreConfig]' + 145 | reAlignment(store, contigID, /*method=*/1, /*bandwidth=*/10, /*includeReference=*/false); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp:51:23: required from here + 51 | consensusAlignment(store, options); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:124:15: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 124 | : data_container(other_.data_container), + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:382:27: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' + 382 | for (; iter != seqEnd - 1; ++iter) + | ~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:453:18: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' + 453 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqHValue, seqVValue, seqBegin, seqEnd, + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 454 | scoringScheme, cacheDiag, cacheVert, TColumnDescriptor{}, TDPProfile{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:515:18: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >, Score > > >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 515 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 516 | sequenceEntryForScore(scoringScheme, seqH, 0), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 517 | sequenceEntryForScore(scoringScheme, seqV, 0), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 518 | seqVBegin, seqVEnd, scoringScheme, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 519 | MetaColumnDescriptor(), dpProfile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >, Score > > >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreValue2 = int; TScoreSpec = WeightedConsensusScore >, Score > >; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' + 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 288 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:657:36: required from 'void seqan::_readToProfileAlignment(TProfileGaps&, TReadGaps&, const TConsensusScore&, const TAlignConfig&, int&, int&, bool) [with TProfileGaps = Gaps >, Alloc<> >, Tag >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, Tag >; TConsensusScore = Score >, Score > > >; TAlignConfig = AlignConfig]' + 657 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 658 | NeedlemanWunsch()); + | ~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1209:36: required from 'void seqan::AnsonMyersRealignmentRound_::run(unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' + 1209 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, linear); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:685:18: required from 'void seqan::AnsonMyersRealigner_::run(unsigned int, unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' + 685 | round.run(windowBegin, windowEnd); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1801:18: required from 'void seqan::reAlignment(FragmentStore&, unsigned int, unsigned int, unsigned int, bool, unsigned int, unsigned int, bool, bool) [with TSpec = void; TConfig = FragmentStoreConfig]' + 1801 | realigner.run(contigID, windowBegin, windowEnd); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:145:24: required from 'void seqan::consensusAlignment(FragmentStore&, const ConsensusAlignmentOptions&) [with TSpec = void; TConfig = FragmentStoreConfig]' + 145 | reAlignment(store, contigID, /*method=*/1, /*bandwidth=*/10, /*includeReference=*/false); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp:51:23: required from here + 51 | consensusAlignment(store, options); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 647 | return Iter >(container(left), hostIterator(left) - right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp:4: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h:304:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 304 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 88 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:99:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::unary_function >, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlap_info_computation.h:38, @@ -186253,55 +186455,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:520:23: required from 'typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' - 520 | return _endDefault(me, tag_); - | ~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:650:29: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' - 650 | if (seqHIterBegin == end(seqH, Rooted()) - 1) - | ~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' - 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 288 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlapper.h:354:24: required from 'bool seqan::Overlapper_::computeOverlap(seqan::Overlap_&, TFragments&, const TSequence&, const TSequence&, const seqan::OverlapCandidate_&) const [with TFragments = seqan::String >; TSequence = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 354 | globalAlignment(align, scoringScheme, alignConfig, lDiag, uDiag, Gotoh()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_builder.h:138:38: required from 'void seqan::ConsensusBuilder_::computeOverlaps(TFragments&, seqan::String&, seqan::Graph >&, const TFragmentStore&, const std::vector&) const [with TFragmentStore = seqan::FragmentStore<>; TFragments = seqan::String >]' - 138 | if (overlapper.computeOverlap(ovl, frags, store.readSeqStore[it->seq0], store.readSeqStore[it->seq1], - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 139 | OverlapCandidate_(it->seq0, it->seq1, it->pos1 - it->numErrors, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 140 | it->pos1 + it->numErrors))) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_builder.h:370:5: required from 'void seqan::ConsensusBuilder_::run(TFragmentStore&, const std::vector&) const [with TFragmentStore = seqan::FragmentStore<>]' - 370 | computeOverlaps(fragments, scores, distances, store, overlapInfos); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner.h:170:20: required from 'void seqan::ConsensusAligner_::run() [with TFragmentStore = seqan::FragmentStore<>]' - 170 | consBuilder.run(store, overlapInfos); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:141:16: required from 'void seqan::consensusAlignment(FragmentStore&, const ConsensusAlignmentOptions&) [with TSpec = void; TConfig = FragmentStoreConfig]' - 141 | aligner.run(); - | ~~~~~~~~~~~^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp:51:23: required from here - 51 | consensusAlignment(store, options); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:486:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 486 | return TIterator(me, end(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -186496,129 +186649,12 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:381:19: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' - 381 | TSeqVIterator iter = seqBegin; - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:453:18: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' - 453 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqHValue, seqVValue, seqBegin, seqEnd, - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 454 | scoringScheme, cacheDiag, cacheVert, TColumnDescriptor{}, TDPProfile{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:515:18: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >, Score > > >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 515 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 516 | sequenceEntryForScore(scoringScheme, seqH, 0), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 517 | sequenceEntryForScore(scoringScheme, seqV, 0), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 518 | seqVBegin, seqVEnd, scoringScheme, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 519 | MetaColumnDescriptor(), dpProfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >, Score > > >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreValue2 = int; TScoreSpec = WeightedConsensusScore >, Score > >; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' - 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 288 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:657:36: required from 'void seqan::_readToProfileAlignment(TProfileGaps&, TReadGaps&, const TConsensusScore&, const TAlignConfig&, int&, int&, bool) [with TProfileGaps = Gaps >, Alloc<> >, Tag >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, Tag >; TConsensusScore = Score >, Score > > >; TAlignConfig = AlignConfig]' - 657 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 658 | NeedlemanWunsch()); - | ~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1209:36: required from 'void seqan::AnsonMyersRealignmentRound_::run(unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' - 1209 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, linear); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:685:18: required from 'void seqan::AnsonMyersRealigner_::run(unsigned int, unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' - 685 | round.run(windowBegin, windowEnd); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1801:18: required from 'void seqan::reAlignment(FragmentStore&, unsigned int, unsigned int, unsigned int, bool, unsigned int, unsigned int, bool, bool) [with TSpec = void; TConfig = FragmentStoreConfig]' - 1801 | realigner.run(contigID, windowBegin, windowEnd); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:145:24: required from 'void seqan::consensusAlignment(FragmentStore&, const ConsensusAlignmentOptions&) [with TSpec = void; TConfig = FragmentStoreConfig]' - 145 | reAlignment(store, contigID, /*method=*/1, /*bandwidth=*/10, /*includeReference=*/false); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp:51:23: required from here - 51 | consensusAlignment(store, options); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:124:15: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 124 | : data_container(other_.data_container), - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 141 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:382:27: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' - 382 | for (; iter != seqEnd - 1; ++iter) - | ~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:453:18: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = ConsensusScoreSequenceEntry >, Alloc<> > >; TSeqVValue = ConsensusScoreSequenceEntry, Alloc<> >, InfixSegment> >; TSeqVIterator = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >, Score > > >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_ >, Tag, TracebackOn, Tag > >, Tag >]' - 453 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqHValue, seqVValue, seqBegin, seqEnd, - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 454 | scoringScheme, cacheDiag, cacheVert, TColumnDescriptor{}, TDPProfile{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:515:18: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >, Score > > >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 515 | _computeTrack(scout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 516 | sequenceEntryForScore(scoringScheme, seqH, 0), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 517 | sequenceEntryForScore(scoringScheme, seqV, 0), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 518 | seqVBegin, seqVEnd, scoringScheme, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 519 | MetaColumnDescriptor(), dpProfile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >, Score > > >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = String >, Alloc<> >; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreValue2 = int; TScoreSpec = WeightedConsensusScore >, Score > >; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' - 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 288 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:657:36: required from 'void seqan::_readToProfileAlignment(TProfileGaps&, TReadGaps&, const TConsensusScore&, const TAlignConfig&, int&, int&, bool) [with TProfileGaps = Gaps >, Alloc<> >, Tag >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, Tag >; TConsensusScore = Score >, Score > > >; TAlignConfig = AlignConfig]' - 657 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 658 | NeedlemanWunsch()); - | ~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1209:36: required from 'void seqan::AnsonMyersRealignmentRound_::run(unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' - 1209 | _readToProfileAlignment(profileGaps, readGaps, consScore, alignConfig, lowerBand, upperBand, linear); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:685:18: required from 'void seqan::AnsonMyersRealigner_::run(unsigned int, unsigned int, unsigned int&) [with TFragmentStore = seqan::FragmentStore<>]' - 685 | round.run(windowBegin, windowEnd); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign/realign_base.h:1801:18: required from 'void seqan::reAlignment(FragmentStore&, unsigned int, unsigned int, unsigned int, bool, unsigned int, unsigned int, bool, bool) [with TSpec = void; TConfig = FragmentStoreConfig]' - 1801 | realigner.run(contigID, windowBegin, windowEnd); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_aligner_interface.h:145:24: required from 'void seqan::consensusAlignment(FragmentStore&, const ConsensusAlignmentOptions&) [with TSpec = void; TConfig = FragmentStoreConfig]' - 145 | reAlignment(store, contigID, /*method=*/1, /*bandwidth=*/10, /*includeReference=*/false); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp:51:23: required from here - 51 | consensusAlignment(store, options); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 647 | return Iter >(container(left), hostIterator(left) - right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { @@ -188288,19 +188324,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 52%] Linking CXX executable ../bin/demo_tutorial_consensus_alignment_without_positions -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/link.d CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -o ../bin/demo_tutorial_consensus_alignment_without_positions -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Built target demo_tutorial_consensus_alignment_without_positions -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -188379,6 +188402,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +[ 52%] Linking CXX executable ../bin/demo_tutorial_consensus_alignment_without_positions +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/link.d CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o -o ../bin/demo_tutorial_consensus_alignment_without_positions -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_consensus_alignment_without_positions +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -188473,6 +188509,31 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -188503,10 +188564,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -188585,27 +188642,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -188861,6 +188897,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +[ 52%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_example1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_example1.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_example1.dir/tutorial/file_io_overview/example1.cpp.o -o ../bin/demo_tutorial_file_io_overview_example1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_file_io_overview_example1 +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -188882,19 +188931,100 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 52%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_example1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_example1.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_example1.dir/tutorial/file_io_overview/example1.cpp.o -o ../bin/demo_tutorial_file_io_overview_example1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Built target demo_tutorial_file_io_overview_example1 -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -189146,100 +189276,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:46: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -189270,14 +189306,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 52%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -o ../bin/demo_tutorial_file_io_overview_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Built target demo_tutorial_file_io_overview_solution1 -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -189305,11 +189333,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -189361,6 +189384,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 52%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o -o ../bin/demo_tutorial_file_io_overview_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_file_io_overview_solution1 +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Building CXX object demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -MF CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -189485,10 +189546,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -189516,78 +189573,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -189815,6 +189800,57 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -189839,6 +189875,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 52%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -o ../bin/demo_tutorial_file_io_overview_solution2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_file_io_overview_solution2 +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -189860,6 +189909,181 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -190087,235 +190311,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 52%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_solution2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o -o ../bin/demo_tutorial_file_io_overview_solution2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 52%] Built target demo_tutorial_file_io_overview_solution2 -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main(int, const char**)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 53%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -o ../bin/demo_tutorial_file_io_overview_solution3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_file_io_overview_solution3 -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -190342,6 +190337,30 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -190688,6 +190707,50 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main(int, const char**)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 53%] Linking CXX executable ../bin/demo_tutorial_file_io_overview_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/link.d CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o -o ../bin/demo_tutorial_file_io_overview_solution3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Built target demo_tutorial_file_io_overview_solution3 +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -191241,54 +191304,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -191546,6 +191561,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 53%] Linking CXX executable ../bin/demo_tutorial_fragment_store_access_aligned_reads cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.d CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o -o ../bin/demo_tutorial_fragment_store_access_aligned_reads -lrt -lz -lbz2 @@ -191559,6 +191595,261 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -191816,10 +192107,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 53%] Linking CXX executable ../bin/demo_tutorial_fragment_store_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_base.dir/link.d CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -o ../bin/demo_tutorial_fragment_store_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Built target demo_tutorial_fragment_store_base +make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp +[ 53%] Linking CXX executable ../bin/demo_tutorial_fragment_store_access_aligned_reads2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/link.d CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -o ../bin/demo_tutorial_fragment_store_access_aligned_reads2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Built target demo_tutorial_fragment_store_access_aligned_reads2 +make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -MF CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o.d -o CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -191829,10 +192146,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:2: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -191950,6 +192264,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 53%] Linking CXX executable ../bin/demo_tutorial_generic_programming_example_hashing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -191994,6 +192310,40 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/link.d CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -o ../bin/demo_tutorial_generic_programming_example_hashing -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Built target demo_tutorial_generic_programming_example_hashing +make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o -MF CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o.d -o CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here + 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 773 | Iter > > result = lhs; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 775 | return result; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -192020,6 +192370,53 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here + 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:87, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' + 88 | Proxy(TIterator const _it) + | ~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here + 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' + 88 | Proxy(TIterator const _it) + | ~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -192045,398 +192442,50 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -[ 53%] Linking CXX executable ../bin/demo_tutorial_fragment_store_access_aligned_reads2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/link.d CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o -o ../bin/demo_tutorial_fragment_store_access_aligned_reads2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_fragment_store_access_aligned_reads2 -make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -MF CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o.d -o CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 53%] Linking CXX executable ../bin/demo_tutorial_fragment_store_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_base.dir/link.d CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o -o ../bin/demo_tutorial_fragment_store_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 53%] Built target demo_tutorial_fragment_store_base -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -MF CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o.d -o CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here - 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 773 | Iter > > result = lhs; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 775 | return result; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here - 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:87, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' - 88 | Proxy(TIterator const _it) - | ~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here - 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' - 88 | Proxy(TIterator const _it) - | ~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here - 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 89 | : data_iterator(_it) - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here - 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 89 | : data_iterator(_it) - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here + 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 89 | : data_iterator(_it) + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp:25:19: required from here + 25 | printAlignment(std::cout, layout, store, 1, 0, 150, 0, 36); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 89 | : data_iterator(_it) + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -192494,6 +192543,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 53%] Linking CXX executable ../bin/demo_tutorial_generic_programming_template_subclassing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -192560,6 +192611,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/link.d CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o -o ../bin/demo_tutorial_generic_programming_template_subclassing -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -192592,6 +192645,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 53%] Built target demo_tutorial_generic_programming_template_subclassing +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/DependInfo.cmake "--color=" /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -192641,8 +192698,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -[ 53%] Linking CXX executable ../bin/demo_tutorial_generic_programming_example_hashing -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -192675,6 +192733,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': @@ -192758,30 +192818,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/link.d CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o -o ../bin/demo_tutorial_generic_programming_example_hashing -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_generic_programming_example_hashing -make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Building CXX object demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o -MF CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o.d -o CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp -[ 53%] Linking CXX executable ../bin/demo_tutorial_generic_programming_template_subclassing -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/link.d CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o -o ../bin/demo_tutorial_generic_programming_template_subclassing -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_generic_programming_template_subclassing -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -192956,12 +192992,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -193086,6 +193116,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -193170,6 +193206,180 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp:4: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -193397,210 +193607,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp:4: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -193699,6 +193705,36 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -193725,19 +193761,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 54%] Linking CXX executable ../bin/demo_tutorial_fragment_store_display_aligned_reads -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.d CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -o ../bin/demo_tutorial_fragment_store_display_aligned_reads -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 54%] Built target demo_tutorial_fragment_store_display_aligned_reads -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: @@ -193763,6 +193786,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 54%] Linking CXX executable ../bin/demo_tutorial_fragment_store_display_aligned_reads +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.d CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o -o ../bin/demo_tutorial_fragment_store_display_aligned_reads -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 54%] Built target demo_tutorial_fragment_store_display_aligned_reads +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -193847,24 +193908,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -193872,6 +193915,14 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 54%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_1_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 54%] Built target demo_tutorial_genome_annotations_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -193890,13 +193941,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -193962,19 +194011,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 54%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_1_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 54%] Built target demo_tutorial_genome_annotations_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -MF CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -194229,31 +194265,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:386:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -194298,24 +194309,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -194414,6 +194407,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:386:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -194440,6 +194458,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -194640,6 +194676,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 54%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_3_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -194684,8 +194722,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 54%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_assignment_3_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o -o ../bin/demo_tutorial_genome_annotations_assignment_3_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Built target demo_tutorial_genome_annotations_assignment_3_solution @@ -194955,31 +194991,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:386:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -195024,24 +195035,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:61: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_annotation.h: In instantiation of 'seqan::Iter > seqan::nodeRight(const Iter >&) [with TFragmentStore = FragmentStore<>; TSpec = void]': /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp:34:24: required from here @@ -195123,6 +195116,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:379:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io/gff_io_base.h:386:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(GffRecord&, CharString&, TFwdIterator&) [with TFwdIterator = Iter >, StreamIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -195199,6 +195217,24 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -195219,6 +195255,17 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 54%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -195287,6 +195334,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 276 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -195315,17 +195380,6 @@ | ^~~~~~~~~~~~~~ [ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 55%] Built target demo_tutorial_gff_and_gtf_io_base @@ -195337,24 +195391,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example1.cpp -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -195527,21 +195567,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 55%] Linking CXX executable ../bin/demo_tutorial_genome_annotations_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_genome_annotations_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_genome_annotations_base.dir/link.d CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o -o ../bin/demo_tutorial_genome_annotations_base -lrt -lz -lbz2 @@ -195555,6 +195580,17 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); @@ -195931,8 +195967,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_example2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -195944,6 +195978,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_example2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_example2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 55%] Built target demo_tutorial_gff_and_gtf_io_example2 @@ -195955,6 +195991,10 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution2.cpp +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -196042,10 +196082,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -196053,6 +196089,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': @@ -196080,6 +196118,15 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 55%] Built target demo_tutorial_gff_and_gtf_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -196105,6 +196152,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -196131,19 +196180,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_gff_and_gtf_io_solution1 -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, @@ -196267,11 +196303,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_solution2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_solution2 -lrt -lz -lbz2 +[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_solution3 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_gff_and_gtf_io_solution2 +[ 55%] Built target demo_tutorial_gff_and_gtf_io_solution3 make -f demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/DependInfo.cmake "--color=" @@ -196280,6 +196316,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o -MF CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o.d -o CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp +[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_solution2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 55%] Built target demo_tutorial_gff_and_gtf_io_solution2 +make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o -MF CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o.d -o CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -196366,8 +196415,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 55%] Linking CXX executable ../bin/demo_tutorial_gff_and_gtf_io_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -196375,17 +196422,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/link.d CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o -o ../bin/demo_tutorial_gff_and_gtf_io_solution3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Built target demo_tutorial_gff_and_gtf_io_solution3 -make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 55%] Building CXX object demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o -MF CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o.d -o CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> @@ -196640,6 +196676,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o -MF CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o.d -o CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp +[ 56%] Linking CXX executable ../bin/demo_tutorial_graph_graph_hmm +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.d CMakeFiles/demo_tutorial_graph_graph_hmm.dir/tutorial/graph/graph_hmm.cpp.o -o ../bin/demo_tutorial_graph_graph_hmm -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Built target demo_tutorial_graph_graph_hmm +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -196725,8 +196774,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 56%] Linking CXX executable ../bin/demo_tutorial_graph_graph_hmm -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -196734,17 +196781,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.d CMakeFiles/demo_tutorial_graph_graph_hmm.dir/tutorial/graph/graph_hmm.cpp.o -o ../bin/demo_tutorial_graph_graph_hmm -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_graph_graph_hmm -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -196909,19 +196945,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 56%] Linking CXX executable ../bin/demo_tutorial_graph_solution_1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_graph_solution_1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_graph_solution_1.dir/link.d CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o -o ../bin/demo_tutorial_graph_solution_1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_graph_solution_1 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -197329,155 +197352,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 56%] Linking CXX executable ../bin/demo_tutorial_graph_solution_1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_graph_solution_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_graph_solution_1.dir/link.d CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o -o ../bin/demo_tutorial_graph_solution_1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Built target demo_tutorial_graph_solution_1 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -198170,6 +198057,91 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple >, Tuple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended >, Tuple, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -198223,6 +198195,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = seqan::Pair >; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:622:44: required from 'void seqan::Handler, seqan::Tag >::push(const TValue&) [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]' 622 | if (handler1) handler1->push(Val_); @@ -198305,6 +198303,44 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -199843,19 +199879,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 56%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_assignment2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_assignment2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_index_iterators_index_assignment2 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 58%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -200826,6 +200849,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 56%] Linking CXX executable ../bin/demo_tutorial_index_iterators_index_assignment2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.d CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o -o ../bin/demo_tutorial_index_iterators_index_assignment2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 56%] Built target demo_tutorial_index_iterators_index_assignment2 +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Building CXX object demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -MF CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o.d -o CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -202117,15 +202153,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public std::unary_function @@ -202145,13 +202172,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -202190,6 +202210,22 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -202424,6 +202460,22 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' @@ -202556,22 +202608,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -203101,91 +203137,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -203235,32 +203186,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -203311,44 +203236,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -203458,6 +203345,155 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_historyClear(Iter > >&) [with TIndex = Index > >; TSpec = Preorder]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:1491:22: required from 'void seqan::goRoot(Iter, VSTree >&) [with TText = String >; TIndexSpec = IndexEsa<>; TSpec = TopDown<>]' @@ -206157,6 +206193,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ [ 59%] Linking CXX executable ../bin/demo_tutorial_index_iterators_iterator_solution1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.d CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o -o ../bin/demo_tutorial_index_iterators_iterator_solution1 -lrt -lz -lbz2 @@ -206170,10 +206210,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 59%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_io_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/tutorial/indexed_fasta_io/base.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_base -lrt -lz -lbz2 @@ -206191,7 +206227,7 @@ from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -206201,7 +206237,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -206286,89 +206322,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -206378,7 +206336,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -206456,32 +206414,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 221 | struct QualityExtractor : public std::unary_function @@ -206489,57 +206421,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -206572,6 +206453,84 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -206695,6 +206654,83 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ [ 59%] Linking CXX executable ../bin/demo_tutorial_indexed_fasta_io_solution1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/link.d CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o -o ../bin/demo_tutorial_indexed_fasta_io_solution1 -lrt -lz -lbz2 @@ -207117,6 +207153,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 59%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -o ../bin/demo_tutorial_indices_assignment_1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Built target demo_tutorial_indices_assignment_1 +make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -MF CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o.d -o CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -207263,19 +207312,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 59%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o -o ../bin/demo_tutorial_indices_assignment_1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Built target demo_tutorial_indices_assignment_1 -make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 59%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -MF CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o.d -o CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -207318,6 +207354,88 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_tree.h:65, + from /usr/include/c++/14/map:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -207367,6 +207485,32 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -207505,6 +207649,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 144 | struct _filterGlobalizer : public std::unary_function { @@ -207519,6 +207676,31 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -207561,152 +207743,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String, seqan::Alloc<> >; TSpec = void]' 429 | Index(Index const &other): | ^~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_tree.h:65, - from /usr/include/c++/14/map:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -207848,8 +207884,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 60%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -207952,17 +207986,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -o ../bin/demo_tutorial_indices_assignment_2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_indices_assignment_2 -make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -MF CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o.d -o CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -208005,6 +208028,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index, seqan::Alloc<> >, seqan::IndexEsa<> >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String, seqan::Alloc<> >; TSpec = void]' 429 | Index(Index const &other): | ^~~~~ +[ 60%] Linking CXX executable ../bin/demo_tutorial_indices_assignment_2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.d CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o -o ../bin/demo_tutorial_indices_assignment_2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Built target demo_tutorial_indices_assignment_2 +make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -MF CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o.d -o CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -208081,113 +208117,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:5: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_tree.h:65, - from /usr/include/c++/14/set:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple >, seqan::Tag >, seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple >, seqan::Tag >, 2, int>, long unsigned int, seqan::File > > >]' @@ -208341,44 +208270,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TConfig = seqan::MapperConfigSize, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler, seqan::Tuple, seqan::Tag >, seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -208962,6 +208853,151 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple, 6, seqan::BitPacked<> >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:5: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_tree.h:65, + from /usr/include/c++/14/set:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/find2_index_approx.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple, Tag >; TConfig = MapperConfigSize<_skew3NMapExtended, Tuple, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -210359,6 +210395,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.cpp +[ 60%] Linking CXX executable ../bin/demo_tutorial_indices_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_base.dir/link.d CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -o ../bin/demo_tutorial_indices_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Built target demo_tutorial_indices_base +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -210450,32 +210499,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 60%] Linking CXX executable ../bin/demo_tutorial_indices_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_indices_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_indices_base.dir/link.d CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o -o ../bin/demo_tutorial_indices_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_indices_base -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp -[ 60%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_1.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o -o ../bin/demo_tutorial_iterators_assignment_1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_iterators_assignment_1 -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -210567,6 +210590,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 60%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_1.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o -o ../bin/demo_tutorial_iterators_assignment_1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Built target demo_tutorial_iterators_assignment_1 +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp +[ 60%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_1_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Built target demo_tutorial_iterators_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -210658,32 +210707,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 60%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_1_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Built target demo_tutorial_iterators_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 60%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop.cpp -[ 61%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_2_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_iterators_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -210775,6 +210798,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 61%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Built target demo_tutorial_iterators_assignment_2_solution +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -210879,19 +210915,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_4_workshop_solution.cpp -[ 61%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_3_workshop_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_3_workshop_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_iterators_assignment_3_workshop_solution -make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -MF CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -210983,6 +211006,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 61%] Linking CXX executable ../bin/demo_tutorial_iterators_assignment_3_workshop_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_iterators_assignment_3_workshop_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Built target demo_tutorial_iterators_assignment_3_workshop_solution +make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 61%] Building CXX object demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -MF CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o.d -o CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp [ 61%] Linking CXX executable ../bin/demo_tutorial_iterators_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_iterators_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_iterators_base.dir/link.d CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o -o ../bin/demo_tutorial_iterators_base -lrt -lz -lbz2 @@ -212426,12 +212462,6 @@ 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': @@ -212451,19 +212481,12 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp -[ 62%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_online_search -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/tutorial/journaled_set/example_online_search.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 62%] Built target demo_tutorial_journaled_set_example_online_search -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -212563,105 +212586,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -212694,18 +212618,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -212745,13 +212657,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -212759,58 +212664,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +[ 62%] Linking CXX executable ../bin/demo_tutorial_journaled_set_example_online_search +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.d CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/tutorial/journaled_set/example_online_search.cpp.o -o ../bin/demo_tutorial_journaled_set_example_online_search -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 62%] Built target demo_tutorial_journaled_set_example_online_search +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 62%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -212837,13 +212703,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -213011,6 +212870,183 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -213211,13 +213247,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 62%] Linking CXX executable ../bin/demo_tutorial_journaled_set_solution_online_search_assignment1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/link.d CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o -o ../bin/demo_tutorial_journaled_set_solution_online_search_assignment1 -lrt -lz -lbz2 @@ -213231,19 +213260,13 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/tutorial/journaled_set/solution_online_search_assignment3.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/tutorial/journaled_set/solution_online_search_assignment3.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/tutorial/journaled_set/solution_online_search_assignment3.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/tutorial/journaled_set/solution_online_search_assignment3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp -[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_solution_online_search_assignment2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/link.d CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o -o ../bin/demo_tutorial_journaled_set_solution_online_search_assignment2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -213343,6 +213366,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_solution_online_search_assignment2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/link.d CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o -o ../bin/demo_tutorial_journaled_set_solution_online_search_assignment2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 63%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o -MF CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -213421,6 +213457,54 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp:177:54: required from here + 177 | SeqFileIn databaseFile(toCString(seqDatabasePath)); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -213506,68 +213590,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp:177:54: required from here - 177 | SeqFileIn databaseFile(toCString(seqDatabasePath)); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -213593,6 +213615,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -213648,6 +213677,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Journaled, seqan::SortedArray, seqan::Alloc<> > >, seqan::InfixSegment>; TIterator = seqan::Iter, seqan::Journaled, seqan::SortedArray, seqan::Alloc<> > >, seqan::JournaledStringIterSpec > >; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Journaled, seqan::SortedArray, seqan::Alloc<> > >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -214106,12 +214142,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_solution_online_search_assignment3 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/link.d CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/tutorial/journaled_set/solution_online_search_assignment3.cpp.o -o ../bin/demo_tutorial_journaled_set_solution_online_search_assignment3 -lrt -lz -lbz2 @@ -214125,6 +214155,12 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.o -MF CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -214216,19 +214252,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_solution_online_search_assignment4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/link.d CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o -o ../bin/demo_tutorial_journaled_set_solution_online_search_assignment4 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 -make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -214261,6 +214284,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_set_solution_online_search_assignment4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_set.h:50: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -214269,6 +214294,17 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/link.d CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o -o ../bin/demo_tutorial_journaled_set_solution_online_search_assignment4 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 63%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -214341,47 +214377,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:61: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/delta_map_entry.h: In instantiation of 'seqan::DeltaMapEntry::DeltaMapEntry(TDeltaPos, TDeltaRecord, const TCoverage&, seqan::DeltaEndType) [with TRefPos = long unsigned int; TStorePos = long unsigned int; TDeltaPos = long unsigned int; TDeltaRecord = seqan::Pair >; TCoverage = seqan::String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/delta_map.h:530:17: required from 'void seqan::impl::insert(seqan::Iter >, TDeltaPos, const TDeltaValue&, const TCoverage&, const seqan::DeltaTypeDel&) [with TDeltaMap = seqan::DeltaMap, seqan::Alloc<> > >, seqan::Tag >; TDeltaPos = int; TDeltaValue = int; TCoverage = seqan::String >; seqan::DeltaTypeDel = seqan::Tag]' @@ -214403,49 +214398,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_packed.h:163:14: note: because 'seqan::String >' has user-provided 'seqan::String >& seqan::String >::operator=(const seqan::String >&) [with TValue = bool; THostspec = seqan::Alloc<>]' 163 | String & operator =(String const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -214471,13 +214423,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree.h:77: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/journaled_string_tree_traverser_node.h: In instantiation of 'TSize seqan::impl::expandNode(seqan::TraverserImpl >&, TTraversalNode*, TSize, TObserver&, const TProxySelector&) [with TJst = seqan::JournaledStringTree, seqan::Alloc<> > >; TSpec = void; TTraversalNode = seqan::JstTraversalNode, seqan::Alloc<> > > >; TSize = long unsigned int; TObserver = std::tuple, seqan::Alloc >, seqan::Tag > > >&>; TProxySelector = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/journaled_string_tree/journaled_string_tree_traverser_util.h:869:36: required from 'TSize seqan::impl::moveWindow(seqan::TraverserImpl >&, TTraversalNode*, TSize, TObserver&, const TProxySelector&) [with TJst = seqan::JournaledStringTree, seqan::Alloc<> > >; TSpec = void; TTraversalNode = seqan::JstTraversalNode, seqan::Alloc<> > > >; TSize = long unsigned int; TObserver = std::tuple, seqan::Alloc >, seqan::Tag > > >&>; TProxySelector = seqan::Tag]' @@ -214751,6 +214696,97 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: note: synthesized method 'seqan::DeltaMapEntry::DeltaMapEntry(seqan::DeltaMapEntry&&)' first required here 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -215295,11 +215331,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.d CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -o ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -lrt -lz -lbz2 +[ 63%] Linking CXX executable ../bin/demo_tutorial_metafunctions_assignment1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o -o ../bin/demo_tutorial_metafunctions_assignment1_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +[ 63%] Built target demo_tutorial_metafunctions_assignment1_solution make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/DependInfo.cmake "--color=" @@ -215308,11 +215344,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o -MF CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o.d -o CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/base.cpp -[ 63%] Linking CXX executable ../bin/demo_tutorial_metafunctions_assignment1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o -o ../bin/demo_tutorial_metafunctions_assignment1_solution -lrt -lz -lbz2 +[ 63%] Linking CXX executable ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.d CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o -o ../bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Built target demo_tutorial_metafunctions_assignment1_solution +[ 63%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/DependInfo.cmake "--color=" @@ -215323,17 +215359,6 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/tutorial/modifiers/UNUSED_modcomplementdna.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/tutorial/modifiers/UNUSED_modcomplementdna.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/tutorial/modifiers/UNUSED_modcomplementdna.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/UNUSED_modcomplementdna.cpp [ 63%] Linking CXX executable ../bin/demo_tutorial_metafunctions_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_metafunctions_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_metafunctions_base.dir/link.d CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o -o ../bin/demo_tutorial_metafunctions_base -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Built target demo_tutorial_metafunctions_base -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -215425,6 +215450,30 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_metafunctions_base.dir/link.d CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o -o ../bin/demo_tutorial_metafunctions_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 63%] Built target demo_tutorial_metafunctions_base +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 63%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp +[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_UNUSED_modcomplementdna +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/link.d CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/tutorial/modifiers/UNUSED_modcomplementdna.cpp.o -o ../bin/demo_tutorial_modifiers_UNUSED_modcomplementdna -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -215516,32 +215565,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_UNUSED_modcomplementdna -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/link.d CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/tutorial/modifiers/UNUSED_modcomplementdna.cpp.o -o ../bin/demo_tutorial_modifiers_UNUSED_modcomplementdna -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp -[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.d CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -o ../bin/demo_tutorial_modifiers_assignment1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_modifiers_assignment1 -make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -215633,12 +215656,38 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp:8:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 8 | public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.d CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o -o ../bin/demo_tutorial_modifiers_assignment1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Built target demo_tutorial_modifiers_assignment1 +make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp +[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_assignment1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o -o ../bin/demo_tutorial_modifiers_assignment1_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Built target demo_tutorial_modifiers_assignment1_solution +make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -215730,32 +215779,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_assignment1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o -o ../bin/demo_tutorial_modifiers_assignment1_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_modifiers_assignment1_solution -make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp -[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_modreverse -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.d CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -o ../bin/demo_tutorial_modifiers_modreverse -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_modifiers_modreverse -make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -215853,6 +215876,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_modreverse +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.txt --verbose=1 +[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_modview +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_modview.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_modview.dir/link.d CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -o ../bin/demo_tutorial_modifiers_modview -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.d CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o -o ../bin/demo_tutorial_modifiers_modreverse -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Built target demo_tutorial_modifiers_modview +make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/depend +[ 64%] Built target demo_tutorial_modifiers_modreverse +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -MF CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o.d -o CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp +[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -215944,32 +215993,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_modview -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_modview.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_modview.dir/link.d CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o -o ../bin/demo_tutorial_modifiers_modview -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_modifiers_modview -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp -[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_nested -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_nested.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_nested.dir/link.d CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -o ../bin/demo_tutorial_modifiers_nested -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Built target demo_tutorial_modifiers_nested -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp:3: @@ -216092,6 +216115,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 64%] Linking CXX executable ../bin/demo_tutorial_modifiers_nested +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_modifiers_nested.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp:4: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h:304:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] @@ -216100,6 +216125,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_modifiers_nested.dir/link.d CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o -o ../bin/demo_tutorial_modifiers_nested -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Built target demo_tutorial_modifiers_nested +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 64%] Building CXX object demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -MF CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d -o CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h: In instantiation of 'bool seqan::convertAlignment(const Graph >&, Align&) [with TStringSet = StringSet, Alloc<> >, Dependent > >; TCargo = void; TSpec = const Tag; TSource = String, Alloc<> >; TSpec2 = Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_msa.h:579:21: required from 'void seqan::globalMsaAlignment(Align&, const TScore&) [with TSource = String, Alloc<> >; TSpec = Tag; TScore = Score, Blosum80_> >]' 579 | convertAlignment(gAlign, align); @@ -217140,67 +217176,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:183: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h: In instantiation of 'int seqan::_globalAlignment(Gaps&, Gaps&, const MyersHirschberg&) [with TSequenceH = String, Alloc<> >; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; MyersHirschberg = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_specialized.h:95:28: required from 'int seqan::globalAlignment(Align&, const MyersHirschberg&) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; MyersHirschberg = Tag]' - 95 | return _globalAlignment(row(align, 0), row(align, 1), algorithmTag); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp:26:32: required from here - 26 | int score = globalAlignment(align, MyersHirschberg()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:348:23: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] - 348 | finger1 = col_; - | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' - 105 | Iter(Iter const & other_) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:368:27: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] - 368 | finger2 = col_; - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' - 105 | Iter(Iter const & other_) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:370:27: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] - 370 | finger1 = col_; - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' - 105 | Iter(Iter const & other_) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:398:36: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] - 398 | finger1 = begin(matrix_); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' - 105 | Iter(Iter const & other_) : - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:423:27: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] - 423 | it_ = finger1; - | ^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' - 105 | Iter(Iter const & other_) : - | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp:3: @@ -217277,6 +217252,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -217295,6 +217277,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -217310,21 +217305,62 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 66%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/link.txt --verbose=1 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:183: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h: In instantiation of 'int seqan::_globalAlignment(Gaps&, Gaps&, const MyersHirschberg&) [with TSequenceH = String, Alloc<> >; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; MyersHirschberg = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_specialized.h:95:28: required from 'int seqan::globalAlignment(Align&, const MyersHirschberg&) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; MyersHirschberg = Tag]' + 95 | return _globalAlignment(row(align, 0), row(align, 1), algorithmTag); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp:26:32: required from here + 26 | int score = globalAlignment(align, MyersHirschberg()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:348:23: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] + 348 | finger1 = col_; + | ^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' + 105 | Iter(Iter const & other_) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:368:27: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] + 368 | finger2 = col_; + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' + 105 | Iter(Iter const & other_) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:370:27: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] + 370 | finger1 = col_; + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' + 105 | Iter(Iter const & other_) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:398:36: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] + 398 | finger1 = begin(matrix_); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' + 105 | Iter(Iter const & other_) : + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_myers_hirschberg_impl.h:423:27: warning: implicitly-declared 'constexpr seqan::Iter, seqan::CountingIteratorImpl_ > >& seqan::Iter, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] + 423 | it_ = finger1; + | ^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::Matrix]' + 105 | Iter(Iter const & other_) : + | ^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 66%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 66%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 @@ -218040,6 +218076,17 @@ cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp [ 66%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_local cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_local -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 66%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 66%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp:3: @@ -218123,17 +218170,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_alignment_local -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 66%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 66%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -218980,19 +219016,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp -[ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp:3: @@ -219129,6 +219152,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_array.h:91:5: note: because 'seqan::Iter >, seqan::Tag >, seqan::GapsIterator > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TGaps = seqan::Gaps >, seqan::Tag >]' 91 | Iter(Iter const & other) : | ^~~~ +[ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp:3: @@ -219278,6 +219314,14 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 67%] Building CXX object demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.o -MF CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.o.d -o CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp +[ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp:3: @@ -219348,20 +219392,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 287 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 68%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function | ^~~~~~~~~~~~~~~ +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 67%] Linking CXX executable ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -219373,18 +219421,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/link.d CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o -o ../bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 68%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/assignment2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -220267,8 +220303,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp -[ 69%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example1_detailed -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -220361,6 +220395,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 69%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example1_detailed +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example1_detailed -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 69%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed @@ -220477,19 +220513,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/example_with_struct.cpp -[ 69%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 69%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/final_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -220582,6 +220605,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 69%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_example_with_own_function -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 69%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -MF CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o.d -o CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/final_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -220687,19 +220723,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp -[ 69%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_final_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_final_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 69%] Built target demo_tutorial_parsing_command_line_arguments_final_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 69%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp:2: @@ -220808,6 +220831,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Built target demo_tutorial_pattern_matching_assignment1 +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp +[ 70%] Linking CXX executable ../bin/demo_tutorial_parsing_command_line_arguments_final_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.d CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o -o ../bin/demo_tutorial_parsing_command_line_arguments_final_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Built target demo_tutorial_parsing_command_line_arguments_final_solution +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp:2: @@ -220891,19 +220940,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Built target demo_tutorial_pattern_matching_assignment1 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -221037,11 +221073,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1_solution -lrt -lz -lbz2 +[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Built target demo_tutorial_pattern_matching_assignment1_solution +[ 70%] Built target demo_tutorial_pattern_matching_assignment2 make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/DependInfo.cmake "--color=" @@ -221050,11 +221086,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp -[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2 -lrt -lz -lbz2 +[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment1_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Built target demo_tutorial_pattern_matching_assignment2 +[ 70%] Built target demo_tutorial_pattern_matching_assignment1_solution make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/DependInfo.cmake "--color=" @@ -221146,31 +221182,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -221320,23 +221331,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2_solution -lrt -lz -lbz2 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Built target demo_tutorial_pattern_matching_assignment2_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -221344,11 +221356,35 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Built target demo_tutorial_pattern_matching_assignment2_solution +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -221765,19 +221801,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Built target demo_tutorial_pattern_matching_assignment3 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -222028,6 +222051,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Built target demo_tutorial_pattern_matching_assignment3 +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, @@ -222061,6 +222097,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram_openaddressing.h:143:9: note: because 'seqan::Index >, seqan::IndexQGram, seqan::Tag > >' has user-provided 'seqan::Index > >::Index(const seqan::Index > >&) [with TObject = seqan::String >; TShapeSpec = seqan::UngappedShape<4>]' 143 | Index(Index const &other): | ^~~~~ +[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 70%] Built target demo_tutorial_pattern_matching_assignment3_solution +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp:3: @@ -222154,47 +222203,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 70%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_assignment3_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o -o ../bin/demo_tutorial_pattern_matching_assignment3_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 70%] Built target demo_tutorial_pattern_matching_assignment3_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_approx -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_approx -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Built target demo_tutorial_pattern_matching_find_approx -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp:3: @@ -222278,6 +222286,21 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -222303,6 +222326,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_approx +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_approx -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_find_approx +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp [ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_exact cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_exact -lrt -lz -lbz2 @@ -222314,6 +222350,8 @@ make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -222392,8 +222430,155 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -MF CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o.d -o CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -222715,6 +222900,29 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:72, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74, @@ -222748,178 +222956,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::String >; TSpec = void]' 429 | Index(Index const &other): | ^~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 340 | struct FibreLess: public std::binary_function @@ -223199,19 +223235,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:429:9: note: because 'seqan::Index > > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText = seqan::StringSet > >; TSpec = void]' 429 | Index(Index const &other): | ^~~~~ -[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Built target demo_tutorial_pattern_matching_find_index -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -223863,6 +223886,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple >, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple >]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 72%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_base.h: In instantiation of 'void seqan::Handler::push(const TValue&) [with TBufferHandler = seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::BufferHandler, seqan::Tuple, seqan::Tag >, seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > > >, seqan::Tag > >, seqan::Tag >; TValue = seqan::Triple, seqan::Tuple, seqan::Tag >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:881:25: required from 'void seqan::Pool::push(const TValue&) [with TValue = seqan::Triple, seqan::Tuple, seqan::Tag >; TSpec = seqan::SorterSpec, seqan::Tuple, seqan::Tag >, int>, long unsigned int, seqan::File > > >]' 881 | writer->push(Val_); @@ -223995,6 +224020,7 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:311:44: warning: implicitly-declared 'constexpr seqan::Triple, seqan::Tuple, seqan::Tag >& seqan::Triple, seqan::Tuple, seqan::Tag >::operator=(const seqan::Triple, seqan::Tuple, seqan::Tag >&)' is deprecated [-Wdeprecated-copy] 311 | buffer[pool.handlerArgs(Val_)] = Val_; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index -lrt -lz -lbz2 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ @@ -224039,6 +224065,16 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Built target demo_tutorial_pattern_matching_find_index +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building CXX object demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'seqan::Buffer& seqan::processBuffer(Buffer >&, BufferHandler >, Tag >&) [with TValue = Triple, Tuple >, Tag >; TConfig = MapperConfigSize<_skew7NMapExtended, Tuple >, Tag >, long unsigned int>, long unsigned int, File > >; typename TConfig::File = File >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:332:33: required from 'seqan::BufferHandler, seqan::Tag >::TBuffer& seqan::BufferHandler, seqan::Tag >::next() [with TValue = seqan::Triple, seqan::Tuple >, seqan::Tag >; TSpec = seqan::MapperSpec, seqan::Tuple >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > >; TBuffer = seqan::Buffer, seqan::Tuple >, seqan::Tag >, seqan::Tag >]' 332 | return processBuffer(*chain.first, *this); @@ -225397,19 +225433,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o -MF CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o.d -o CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.cpp -[ 73%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index_multiple -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index_multiple -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_pattern_matching_find_index_multiple -make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -MF CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o.d -o CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -225806,6 +225829,119 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 73%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_qgram_hash +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_qgram_hash -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_q_gram_index_index_qgram_hash +make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -MF CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o.d -o CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp +[ 73%] Linking CXX executable ../bin/demo_tutorial_pattern_matching_find_index_multiple +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.d CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o -o ../bin/demo_tutorial_pattern_matching_find_index_multiple -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_pattern_matching_find_index_multiple +make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -MF CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o.d -o CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:1: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -225890,6 +226026,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ @@ -225932,8 +226079,42 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_q_gram_index_index_qgram_hash -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.txt --verbose=1 +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -225979,8 +226160,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.d CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o -o ../bin/demo_tutorial_q_gram_index_index_qgram_hash -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -225988,25 +226167,16 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 73%] Built target demo_tutorial_q_gram_index_index_qgram_hash -make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h:304:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 304 | public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -MF CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o.d -o CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:59: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/consensus_library.h:88:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 88 | public std::unary_function, bool> @@ -226307,640 +226477,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here - 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 773 | Iter > > result = lhs; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 775 | return result; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here - 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:87, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' - 88 | Proxy(TIterator const _it) - | ~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here - 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' - 88 | Proxy(TIterator const _it) - | ~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here - 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 89 | : data_iterator(_it) - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 205 | return TProxy(it); - | ^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' - 250 | return value(me); - | ~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1628 | else if (convert(*cit) == convert(*it)) - | ^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here - 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 89 | : data_iterator(_it) - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:1: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' - 996 | if (!open(seqFile, toCString(fileNameList[f]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' - 1035 | return loadContigs(store, fileNames, loadSeqs); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' - 1043 | return loadContigs(store, fileNames, true); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here - 16 | loadContigs(store, refPath.c_str()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' - 996 | if (!open(seqFile, toCString(fileNameList[f]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' - 1035 | return loadContigs(store, fileNames, loadSeqs); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' - 1043 | return loadContigs(store, fileNames, true); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here - 16 | loadContigs(store, refPath.c_str()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' - 996 | if (!open(seqFile, toCString(fileNameList[f]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' - 1035 | return loadContigs(store, fileNames, loadSeqs); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' - 1043 | return loadContigs(store, fileNames, true); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here - 16 | loadContigs(store, refPath.c_str()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' - 996 | if (!open(seqFile, toCString(fileNameList[f]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' - 1035 | return loadContigs(store, fileNames, loadSeqs); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' - 1043 | return loadContigs(store, fileNames, true); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here - 16 | loadContigs(store, refPath.c_str()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' - 679 | return begin(me, Tag()) + pos; - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:661:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' - 661 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:466:20: required from 'void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment, Alloc<> >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long int]' - 466 | TIter it = iter(gaps, clippedViewPos); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2236:27: required from 'void seqan::_alignedReadsInsertGaps(TAlignedReadIter, TAlignedReadIter, TPos, TSize, TReadSeqStore&) [with TAlignedReadIter = AlignedReadStoreElement, void>*; TPos = long int; TSize = long int; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' - 2236 | insertGaps(gaps, insPos - rBegin, blkLen); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2321:40: required from 'void seqan::_twoWayMergeAlignments(TContigGapsGlobal&, TContigGapsPW&, TReadGaps&, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TReadSeqStore&) [with TContigGapsGlobal = Gaps, AnchorGaps, Alloc<> > > >; TContigGapsPW = Gaps, AnchorGaps, Alloc<> >, InfixSegment> > >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TAlignedReadIter = AlignedReadStoreElement, void>*; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' - 2321 | _alignedReadsInsertGaps(overlappingAlignedReadsBegin1, overlappingAlignedReadsEnd1, insPos, blkLen, readSeqStore); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2437:31: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2437 | _twoWayMergeAlignments( - | ~~~~~~~~~~~~~~~~~~~~~~^ - 2438 | contigGapsGlobal, contigGapsPW, readGaps, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2439 | firstOverlapOld, lastOverlapOld, firstOverlapNew, it, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2440 | store.readSeqStore); - | ~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:18:16: required from here - 18 | readRecords(store, bamFileIn); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 773 | Iter > > result = lhs; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 775 | return result; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' - 996 | if (!open(seqFile, toCString(fileNameList[f]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' - 1035 | return loadContigs(store, fileNames, loadSeqs); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' - 1043 | return loadContigs(store, fileNames, true); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here - 16 | loadContigs(store, refPath.c_str()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 165 | data_gaps(anchors), - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); - | ^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:18:16: required from here - 18 | readRecords(store, bamFileIn); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 175 | data_source(source), - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:18:16: required from here - 18 | readRecords(store, bamFileIn); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -226988,7 +226524,7 @@ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/realign.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa/graph_align_tcoffee_base.h:304:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 304 | public std::binary_function | ^~~~~~~~~~~~~~~ @@ -227193,6 +226729,13 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -227375,6 +226918,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here + 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 773 | Iter > > result = lhs; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 775 | return result; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 250 | return value(me); @@ -227425,6 +226993,107 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here + 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:87, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' + 88 | Proxy(TIterator const _it) + | ~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here + 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' + 88 | Proxy(TIterator const _it) + | ~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -227524,6 +227193,80 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:32: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here + 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 89 | : data_iterator(_it) + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 205 | return TProxy(it); + | ^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' + 250 | return value(me); + | ~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1628:55: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ostream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1628 | else if (convert(*cit) == convert(*it)) + | ^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ostream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = int; TPos = int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:23:19: required from here + 23 | printAlignment(std::cout, layout, store, /*contigID=*/ 0, /*posBegin=*/ 1060, + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 24 | /*posEnd=*/ 1140, /*lineBegin=*/ 0, /*lineEnd=*/ 100); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:89:15: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 89 | : data_iterator(_it) + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = unsigned int; TTag = Standard_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' 679 | return begin(me, Tag()) + pos; @@ -227606,6 +227349,37 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' 1043 | return loadContigs(store, fileNames, true); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here + 16 | loadContigs(store, refPath.c_str()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' + 996 | if (!open(seqFile, toCString(fileNameList[f]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' + 1035 | return loadContigs(store, fileNames, loadSeqs); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' + 1043 | return loadContigs(store, fileNames, true); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp:16:16: required from here 16 | loadContigs(store, refPath.c_str()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ @@ -227618,6 +227392,40 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' + 996 | if (!open(seqFile, toCString(fileNameList[f]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' + 1035 | return loadContigs(store, fileNames, loadSeqs); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' + 1043 | return loadContigs(store, fileNames, true); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here + 16 | loadContigs(store, refPath.c_str()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' @@ -227753,6 +227561,38 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' + 996 | if (!open(seqFile, toCString(fileNameList[f]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' + 1035 | return loadContigs(store, fileNames, loadSeqs); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' + 1043 | return loadContigs(store, fileNames, true); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here + 16 | loadContigs(store, refPath.c_str()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -227787,6 +227627,202 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' + 996 | if (!open(seqFile, toCString(fileNameList[f]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' + 1035 | return loadContigs(store, fileNames, loadSeqs); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' + 1043 | return loadContigs(store, fileNames, true); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here + 16 | loadContigs(store, refPath.c_str()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' + 679 | return begin(me, Tag()) + pos; + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:661:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' + 661 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:466:20: required from 'void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment, Alloc<> >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long int]' + 466 | TIter it = iter(gaps, clippedViewPos); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2236:27: required from 'void seqan::_alignedReadsInsertGaps(TAlignedReadIter, TAlignedReadIter, TPos, TSize, TReadSeqStore&) [with TAlignedReadIter = AlignedReadStoreElement, void>*; TPos = long int; TSize = long int; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' + 2236 | insertGaps(gaps, insPos - rBegin, blkLen); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2321:40: required from 'void seqan::_twoWayMergeAlignments(TContigGapsGlobal&, TContigGapsPW&, TReadGaps&, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TReadSeqStore&) [with TContigGapsGlobal = Gaps, AnchorGaps, Alloc<> > > >; TContigGapsPW = Gaps, AnchorGaps, Alloc<> >, InfixSegment> > >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TAlignedReadIter = AlignedReadStoreElement, void>*; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' + 2321 | _alignedReadsInsertGaps(overlappingAlignedReadsBegin1, overlappingAlignedReadsEnd1, insPos, blkLen, readSeqStore); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2437:31: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2437 | _twoWayMergeAlignments( + | ~~~~~~~~~~~~~~~~~~~~~~^ + 2438 | contigGapsGlobal, contigGapsPW, readGaps, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2439 | firstOverlapOld, lastOverlapOld, firstOverlapNew, it, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2440 | store.readSeqStore); + | ~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:18:16: required from here + 18 | readRecords(store, bamFileIn); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 773 | Iter > > result = lhs; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 775 | return result; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' + 996 | if (!open(seqFile, toCString(fileNameList[f]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' + 1035 | return loadContigs(store, fileNames, loadSeqs); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' + 1043 | return loadContigs(store, fileNames, true); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:16:16: required from here + 16 | loadContigs(store, refPath.c_str()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 165 | data_gaps(anchors), + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); + | ^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:18:16: required from here + 18 | readRecords(store, bamFileIn); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 175 | data_source(source), + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp:18:16: required from here + 18 | readRecords(store, bamFileIn); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -228322,6 +228358,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -228579,134 +228636,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_realignment_step1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_realignment_step1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_realignment_step1.dir/link.d CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -o ../bin/demo_tutorial_realignment_step1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_realignment_step1 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -228934,36 +228863,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -228994,6 +228893,143 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 73%] Linking CXX executable ../bin/demo_tutorial_realignment_step1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_realignment_step1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_realignment_step1.dir/link.d CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o -o ../bin/demo_tutorial_realignment_step1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_realignment_step1 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -229179,6 +229215,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 73%] Linking CXX executable ../bin/demo_tutorial_realignment_step2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_realignment_step2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_realignment_step2.dir/link.d CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -o ../bin/demo_tutorial_realignment_step2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_realignment_step2 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -229287,40 +229336,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_realignment_step2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_realignment_step2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_realignment_step2.dir/link.d CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o -o ../bin/demo_tutorial_realignment_step2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_realignment_step2 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -229415,6 +229430,135 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -229642,23 +229786,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -229683,106 +229810,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example1 -lrt -lz -lbz2 +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 73%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_sam_and_bam_io_example1 +[ 73%] Built target demo_tutorial_sam_and_bam_io_example2 make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/DependInfo.cmake "--color=" @@ -229791,10 +229831,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ +[ 73%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_sam_and_bam_io_example1 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -229883,126 +229932,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 73%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_sam_and_bam_io_example2 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -230114,6 +230043,23 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -230127,6 +230073,70 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -230154,6 +230164,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -230756,12 +230792,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example7 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_example7 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_example7 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 74%] Built target demo_tutorial_sam_and_bam_io_example7 @@ -230773,6 +230809,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp +[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_sam_and_bam_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -230867,127 +230916,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_sam_and_bam_io_solution1 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -MF CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o.d -o CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:47, @@ -231112,27 +231040,114 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -231211,6 +231226,48 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -231466,27 +231523,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 74%] Linking CXX executable ../bin/demo_tutorial_sam_and_bam_io_solution2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/link.d CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o -o ../bin/demo_tutorial_sam_and_bam_io_solution2 -lrt -lz -lbz2 @@ -232254,6 +232290,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 74%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -232261,6 +232299,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_seed_and_extend_example1 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -232328,8 +232377,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 74%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -232346,17 +232393,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_seed_and_extend_example1 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -232605,19 +232641,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 74%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_seed_and_extend_example2 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp:2: @@ -233037,6 +233060,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 74%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_seed_and_extend_example2 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -233449,25 +233485,25 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 74%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example4 -lrt -lz -lbz2 +[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.txt --verbose=1 +[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example4 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example3 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_seed_and_extend_example4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/link.txt --verbose=1 +[ 75%] Built target demo_tutorial_seed_and_extend_example3 make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp -[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example3 -lrt -lz -lbz2 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example4 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_seed_and_extend_example3 +[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o +[ 75%] Built target demo_tutorial_seed_and_extend_example4 make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -233478,97 +233514,6 @@ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function @@ -233714,82 +233659,106 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp:4: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -233816,6 +233785,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -234038,6 +234014,66 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp:4: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -234302,11 +234338,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example5 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example5 -lrt -lz -lbz2 +[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example6 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example6 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_seed_and_extend_example5 +[ 75%] Built target demo_tutorial_seed_and_extend_example6 make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/DependInfo.cmake "--color=" @@ -234315,11 +234351,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp -[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example6 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example6 -lrt -lz -lbz2 +[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example5 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example5 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_seed_and_extend_example6 +[ 75%] Built target demo_tutorial_seed_and_extend_example5 make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/DependInfo.cmake "--color=" @@ -234329,15 +234365,16 @@ [ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_tree.h:65, from /usr/include/c++/14/map:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:2: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -234408,49 +234445,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:5: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public std::unary_function | ^~~~~~~~~~~~~~ @@ -234507,6 +234512,128 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_tree.h:65, + from /usr/include/c++/14/map:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -234595,6 +234722,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -234741,146 +234881,10 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_tree.h:65, - from /usr/include/c++/14/map:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, SuffixSegment>; TIterator = const SimpleType*; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, SuffixSegment>; TSequenceV = Segment, Alloc<> >, SuffixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; - | ~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, SuffixSegment>; TSequenceV = Segment, Alloc<> >, SuffixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, SuffixSegment>; TSequenceV = Segment, Alloc<> >, SuffixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1336:38: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' - 1336 | score = _computeAlignment(localTraceSet, scoutState, suffix(seqH, gridBeginH), suffix(seqV, gridBeginV), - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1337 | scoreSchemeGap, DPBandConfig(), DPProfile_, TGapSpec, TracebackOn, TExecPolicy>()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' - 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here - 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>&)' is deprecated [-Wdeprecated-copy] - 647 | return Iter >(container(left), hostIterator(left) - right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:97: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 129 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:5: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 45 | struct filterI1 : public std::unary_function | ^~~~~~~~~~~~~~ @@ -234937,140 +234941,449 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; - | ~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' - 873 | score = _computeAlignment(globalTraceSet, scoutState, infixH, infixV, scoreSchemeGap, DPBandConfig(), - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 874 | DPProfile_, TGaps, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 875 | TracebackOn, TExecPolicy>()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' - 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' - 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here - 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 647 | return Iter >(container(left), hostIterator(left) - right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:631:62: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_<>; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' - 631 | TConstSeqHIterator seqHIterBegin = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, lowerDiagonal(band))); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:930:38: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' - 930 | score = _computeAlignment(localTraceSet[0], noScout, infixH, infixV, scoreSchemeGap, band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 931 | DPProfile_, TGaps, TracebackOn, TExecPolicy>()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' - 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' - 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here - 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:586:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 586 | return Iter >(container(left), hostIterator(left) + right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag; TIntegral = long int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:634:69: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_<>; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' - 634 | TConstSeqHIterator seqHIterEndColumnTop = begin(seqH, Rooted()) + _min(seqHlength - 1, _max(0, upperDiagonal(band))); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:930:38: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' - 930 | score = _computeAlignment(localTraceSet[0], noScout, infixH, infixV, scoreSchemeGap, band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 931 | DPProfile_, TGaps, TracebackOn, TExecPolicy>()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' - 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' - 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here - 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -o ../bin/demo_tutorial_seed_and_extend_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_seed_and_extend_solution1 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, SuffixSegment>; TIterator = const SimpleType*; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, SuffixSegment>; TSequenceV = Segment, Alloc<> >, SuffixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; + | ~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, SuffixSegment>; TSequenceV = Segment, Alloc<> >, SuffixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, SuffixSegment>; TSequenceV = Segment, Alloc<> >, SuffixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1336:38: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' + 1336 | score = _computeAlignment(localTraceSet, scoutState, suffix(seqH, gridBeginH), suffix(seqV, gridBeginV), + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1337 | scoreSchemeGap, DPBandConfig(), DPProfile_, TGapSpec, TracebackOn, TExecPolicy>()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' + 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here + 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>&)' is deprecated [-Wdeprecated-copy] + 647 | return Iter >(container(left), hostIterator(left) - right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:97: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 129 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; + | ~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' + 873 | score = _computeAlignment(globalTraceSet, scoutState, infixH, infixV, scoreSchemeGap, DPBandConfig(), + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 874 | DPProfile_, TGaps, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 875 | TracebackOn, TExecPolicy>()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' + 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' + 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here + 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 647 | return Iter >(container(left), hostIterator(left) - right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:631:62: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_<>; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' + 631 | TConstSeqHIterator seqHIterBegin = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, lowerDiagonal(band))); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:930:38: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' + 930 | score = _computeAlignment(localTraceSet[0], noScout, infixH, infixV, scoreSchemeGap, band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 931 | DPProfile_, TGaps, TracebackOn, TExecPolicy>()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' + 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' + 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here + 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:586:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 586 | return Iter >(container(left), hostIterator(left) + right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator+(const Iter >&, TIntegral) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag; TIntegral = long int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:634:69: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_<>; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' + 634 | TConstSeqHIterator seqHIterEndColumnTop = begin(seqH, Rooted()) + _min(seqHlength - 1, _max(0, upperDiagonal(band))); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_<>; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:930:38: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' + 930 | score = _computeAlignment(localTraceSet[0], noScout, infixH, infixV, scoreSchemeGap, band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 931 | DPProfile_, TGaps, TracebackOn, TExecPolicy>()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_<>; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' + 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = false; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = false; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:245:32: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpec = Tag]' + 245 | return bandedChainAlignment(align, seedSet, scoreScheme, scoreScheme, AlignConfig<>(), bandExtension); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp:30:38: required from here + 30 | int result = bandedChainAlignment(alignment, seedChain, scoringScheme, 2); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:577:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] 577 | return Iter >(container(left), hostIterator(left) + right); @@ -235429,22 +235742,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 129 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | : data_container(_toPointer(container_)), @@ -235497,267 +235794,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:52: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 75%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o -o ../bin/demo_tutorial_seed_and_extend_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Built target demo_tutorial_seed_and_extend_solution1 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -237233,8 +237269,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example7 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -237436,17 +237470,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example7 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Built target demo_tutorial_seed_and_extend_example7 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -237468,6 +237491,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_example7 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o -o ../bin/demo_tutorial_seed_and_extend_example7 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Built target demo_tutorial_seed_and_extend_example7 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Building CXX object demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -MF CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o.d -o CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp [ 76%] Linking CXX executable ../bin/demo_tutorial_seed_and_extend_solution5 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/link.d CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o -o ../bin/demo_tutorial_seed_and_extend_solution5 -lrt -lz -lbz2 @@ -237561,6 +237597,35 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_tree.h:65, + from /usr/include/c++/14/map:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -237572,6 +237637,65 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -237887,101 +238011,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_tree.h:65, - from /usr/include/c++/14/map:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds.h:50, @@ -238042,6 +238071,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -238450,42 +238486,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter >::Iter(const seqan::Iter >&) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:381:19: required from 'void seqan::_computeTrack(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSeqHValue&, const TSeqVValue&, const TSeqVIterator&, const TSeqVIterator&, const TScoringScheme&, TDPCell&, TDPCell&, const TColumnDescriptor&, const TDPProfile&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSeqHValue = SimpleType; TSeqVValue = SimpleType; TSeqVIterator = Iter, Alloc<> >, SuffixSegment>, AdaptorIterator*, Tag > >; TScoringScheme = Score >; TDPCell = DPCell_ >; TColumnDescriptor = MetaColumnDescriptor, Tag >; TDPProfile = DPProfile_, Tag >, Tag, TracebackOn, Tag > >, Tag >]' 381 | TSeqVIterator iter = seqBegin; @@ -238540,12 +238540,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 129 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = SuffixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, SuffixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>]' @@ -238591,6 +238585,97 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_suffix.h:129:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::SuffixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' 129 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]' + 647 | return Iter >(container(left), hostIterator(left) - right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' + 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; + | ~~~~~~~~~~~~~~~~~~~~^~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' + 873 | score = _computeAlignment(globalTraceSet, scoutState, infixH, infixV, scoreSchemeGap, DPBandConfig(), + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 874 | DPProfile_, TGaps, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 875 | TracebackOn, TExecPolicy>()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' + 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = true; TACSpec = Tag; TGapsPlacement = Tag]' + 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 259 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = true; TACSpec = Tag]' + 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp:28:38: required from here + 28 | int result = bandedChainAlignment(alignment, seedChain, scoringSchemeAnchor, scoringSchemeGap, alignConfig, 2); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -238690,55 +238775,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = const seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:647:12: required from 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = const SimpleType*; TSpec = Tag]' - 647 | return Iter >(container(left), hostIterator(left) - right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:526:58: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWise&) [with TDPScout = DPScout_ >, Tag >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = BandedChainAlignment_, Tag >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWise = Tag]' - 526 | TConstSeqHIterator seqHIterEnd = end(seqH, Rooted()) - 1; - | ~~~~~~~~~~~~~~~~~~~~^~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1264:29: required from 'typename seqan::Value::Type seqan::_computeAlignment(TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TGapScheme = Tag; TTraceTarget = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = Segment, Alloc<> >, InfixSegment>; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = BandedChainAlignment_, Tag >; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1264 | return _computeAlignment(dpContext, traceSegments, scoutState, seqH, seqV, scoreScheme, band, dpProfile); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:873:34: required from 'typename seqan::Value::Type seqan::_initializeBandedChain(TTraceSet&, TScoutState&, const TSeed&, unsigned int, const TSeqH&, const TSeqV&, const TScoreScheme&, const TScoreScheme&, const DPProfile_, TGapCosts, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TScoutState = DPScoutState_ > > >; TSeed = Seed >; TSeqH = String, Alloc<> >; TSeqV = String, Alloc<> >; TScoreScheme = Score >; TFreeEndGaps = FreeEndGaps_; TDPMatrixLocation = Tag; TGaps = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag; typename Value::Type = int]' - 873 | score = _computeAlignment(globalTraceSet, scoutState, infixH, infixV, scoreSchemeGap, DPBandConfig(), - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 874 | DPProfile_, TGaps, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 875 | TracebackOn, TExecPolicy>()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_impl.h:1319:47: required from 'TScoreValue seqan::_computeAlignment(TTraceSet&, const TSeedSet&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, unsigned int, const DPProfile_, TGapSpec, TracebackOn, TExecPolicy>&) [with TTraceSet = StringSet, Alloc<> >, Owner<> >; TSeedSet = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; TFreeEndGaps = FreeEndGaps_; TDPMatrixLocation = Tag; TGapSpec = Tag; TTracebackConfig = TracebackConfig_, Tag >; TExecPolicy = Tag]' - 1319 | TScoreValue score = _initializeBandedChain(globalTraceSet, scoutState, value(it), bandExtension, seqH, seqV, - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1320 | scoreSchemeAnchor, scoreSchemeGap, profile); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment_profile.h:258:33: required from 'TScoreValue seqan::_setupAndRunBandedChainAlignment(StringSet, TStringSetSpec>&, const TSeeds&, const TSequenceH&, const TSequenceV&, const Score&, const Score&, const AlignConfig&, unsigned int, const TGapsPlacement&) [with TTraceSegment = TraceSegment_; TStringSetSpec = Owner<>; TSeeds = String > >; TSequenceH = String, Alloc<> >; TSequenceV = String, Alloc<> >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = true; TACSpec = Tag; TGapsPlacement = Tag]' - 258 | return _computeAlignment(globalTraceSet, seedSet, seqH, seqV, scoringSchemeAnchor, scoringSchemeGap, bandExtension, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 259 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seeds/banded_chain_alignment.h:201:41: required from 'TScoreValue seqan::bandedChainAlignment(Align&, const TSeeds&, const Score&, const Score&, const AlignConfig&, unsigned int) [with TSequence = String, Alloc<> >; TAlignSpec = Tag; TSeeds = String > >; TScoreValue = int; TScoreSpecAnchor = Tag; TScoreSpecGap = Tag; bool TFirstRow = true; bool TFirstColumn = false; bool TLastColumn = false; bool TLastRow = true; TACSpec = Tag]' - 201 | _setupAndRunBandedChainAlignment(traceSet, seedSet, source(row(align, 0)), source(row(align, 1)), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 202 | scoreSchemeAnchor, scoreSchemeGap, alignConfig, bandExtension, GapsLeft()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp:28:38: required from here - 28 | int result = bandedChainAlignment(alignment, seedChain, scoringSchemeAnchor, scoringSchemeGap, alignConfig, 2); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -240406,10 +240442,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -240456,6 +240488,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ [ 77%] Linking CXX executable ../bin/demo_tutorial_sequence_io_example1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_example1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_example1.dir/link.d CMakeFiles/demo_tutorial_sequence_io_example1.dir/tutorial/sequence_io/example1.cpp.o -o ../bin/demo_tutorial_sequence_io_example1 -lrt -lz -lbz2 @@ -240571,6 +240607,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -240590,10 +240630,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -241039,10 +241075,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -241236,6 +241268,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ [ 77%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution2 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o -o ../bin/demo_tutorial_sequence_io_solution2 -lrt -lz -lbz2 @@ -241383,6 +241419,10 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -241622,10 +241662,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ [ 77%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution3 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_solution3.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o -o ../bin/demo_tutorial_sequence_io_solution3 -lrt -lz -lbz2 @@ -241740,10 +241776,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_2_solution.cpp -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -241828,8 +241860,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 78%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution4.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -241837,6 +241867,12 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequence_io_solution4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequence_io_solution4.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequence_io_solution4.dir/link.d CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o -o ../bin/demo_tutorial_sequence_io_solution4 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 78%] Built target demo_tutorial_sequence_io_solution4 @@ -241848,6 +241884,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3.cpp +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Built target demo_tutorial_sequences_assignment_2_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -241939,36 +241988,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_2_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_sequences_assignment_2_solution -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp -[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_3.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o -o ../bin/demo_tutorial_sequences_assignment_3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_sequences_assignment_3 -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp:1: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -241978,7 +242001,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -242056,10 +242079,36 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_3.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o -o ../bin/demo_tutorial_sequences_assignment_3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Built target demo_tutorial_sequences_assignment_3 +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_3_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_3_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Built target demo_tutorial_sequences_assignment_3_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -242069,7 +242118,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:46: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -242147,32 +242196,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_3_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_3_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_sequences_assignment_3_solution -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp -[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_4_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_4_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_sequences_assignment_4_solution -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -242264,6 +242287,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_5_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_5_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Built target demo_tutorial_sequences_assignment_5_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -MF CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_4_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_4_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Built target demo_tutorial_sequences_assignment_4_solution +make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -MF CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -242355,19 +242404,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_5_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_5_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Built target demo_tutorial_sequences_assignment_5_solution -make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -MF CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/base.cpp:2: @@ -242455,24 +242491,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_6_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_6_solution -lrt -lz -lbz2 +[ 78%] Linking CXX executable ../bin/demo_tutorial_sequences_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_base.dir/link.d CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -o ../bin/demo_tutorial_sequences_base -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Built target demo_tutorial_sequences_assignment_6_solution +[ 78%] Built target demo_tutorial_sequences_base make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o +[ 78%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o -MF CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp -[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_base.dir/link.d CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o -o ../bin/demo_tutorial_sequences_base -lrt -lz -lbz2 +[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_assignment_6_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.d CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o -o ../bin/demo_tutorial_sequences_assignment_6_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Built target demo_tutorial_sequences_base +[ 79%] Built target demo_tutorial_sequences_assignment_6_solution make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/DependInfo.cmake "--color=" @@ -242590,77 +242626,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -242743,13 +242708,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -242764,6 +242722,84 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -242872,6 +242908,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_example_conversions_copy +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -242911,15 +242949,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_example_conversions_copy -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.d CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/tutorial/sequences/example_conversions_copy.cpp.o -o ../bin/demo_tutorial_sequences_example_conversions_copy -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 79%] Built target demo_tutorial_sequences_example_conversions_copy @@ -242931,6 +242960,13 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o -MF CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -243007,19 +243043,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_example_conversions_move -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.d CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/tutorial/sequences/example_conversions_move.cpp.o -o ../bin/demo_tutorial_sequences_example_conversions_move -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Built target demo_tutorial_sequences_example_conversions_move -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o -MF CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -243116,6 +243139,51 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 79%] Linking CXX executable ../bin/demo_tutorial_sequences_example_conversions_move +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.d CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/tutorial/sequences/example_conversions_move.cpp.o -o ../bin/demo_tutorial_sequences_example_conversions_move -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 79%] Built target demo_tutorial_sequences_example_conversions_move +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 79%] Building CXX object demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o -MF CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o.d -o CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -243198,25 +243266,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -243224,19 +243273,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 221 | struct QualityExtractor : public std::unary_function @@ -243309,19 +243345,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -243398,6 +243421,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -243958,83 +243994,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -244130,6 +244089,83 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -244307,19 +244343,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp -[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -244355,6 +244378,8 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 228 | struct FunctorComplement : public std::unary_function | ^~~~~~~~~~~~~~ @@ -244404,6 +244429,12 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -244415,6 +244446,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -244495,6 +244531,129 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:2: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -244543,6 +244702,14 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -244619,6 +244786,50 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' @@ -244753,181 +244964,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -245213,24 +245249,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': @@ -245276,6 +245294,24 @@ /usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -245773,6 +245809,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp +[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -245868,19 +245917,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -245896,195 +245932,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:39:14: required from here - 39 | if (!open(annotationFile, toCString(annotationFileName))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:39:14: required from here - 39 | if (!open(annotationFile, toCString(annotationFileName))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -246169,6 +246016,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -246180,6 +246040,14 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -246216,140 +246084,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' - 679 | return begin(me, Tag()) + pos; - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:661:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' - 661 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:466:20: required from 'void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment, Alloc<> >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long int]' - 466 | TIter it = iter(gaps, clippedViewPos); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2236:27: required from 'void seqan::_alignedReadsInsertGaps(TAlignedReadIter, TAlignedReadIter, TPos, TSize, TReadSeqStore&) [with TAlignedReadIter = AlignedReadStoreElement, void>*; TPos = long int; TSize = long int; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' - 2236 | insertGaps(gaps, insPos - rBegin, blkLen); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2321:40: required from 'void seqan::_twoWayMergeAlignments(TContigGapsGlobal&, TContigGapsPW&, TReadGaps&, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TReadSeqStore&) [with TContigGapsGlobal = Gaps, AnchorGaps, Alloc<> > > >; TContigGapsPW = Gaps, AnchorGaps, Alloc<> >, InfixSegment> > >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TAlignedReadIter = AlignedReadStoreElement, void>*; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' - 2321 | _alignedReadsInsertGaps(overlappingAlignedReadsBegin1, overlappingAlignedReadsEnd1, insPos, blkLen, readSeqStore); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2437:31: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2437 | _twoWayMergeAlignments( - | ~~~~~~~~~~~~~~~~~~~~~~^ - 2438 | contigGapsGlobal, contigGapsPW, readGaps, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2439 | firstOverlapOld, lastOverlapOld, firstOverlapNew, it, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 2440 | store.readSeqStore); - | ~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:34:16: required from here - 34 | readRecords(store, alignmentFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 773 | Iter > > result = lhs; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 775 | return result; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 165 | data_gaps(anchors), - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); - | ^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:34:16: required from here - 34 | readRecords(store, alignmentFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 175 | data_source(source), - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:34:16: required from here - 34 | readRecords(store, alignmentFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -246387,6 +246121,50 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -246449,6 +246227,54 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:39:14: required from here + 39 | if (!open(annotationFile, toCString(annotationFileName))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -246496,6 +246322,56 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:39:14: required from here + 39 | if (!open(annotationFile, toCString(annotationFileName))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -246547,6 +246423,166 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' + 679 | return begin(me, Tag()) + pos; + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:661:16: required from 'typename seqan::Iterator::Type>::Type seqan::iter(T&, TPos) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; typename Iterator::Type>::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >; typename DefaultGetIteratorSpec::Type = const Tag]' + 661 | return iter(me, pos, typename DefaultGetIteratorSpec::Type()); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:466:20: required from 'void seqan::insertGaps(Gaps >&, TPosition, TCount) [with TSequence = Segment, Alloc<> >, InfixSegment>; TGapAnchors = String, Alloc<> >; TPosition = long int; TCount = long int]' + 466 | TIter it = iter(gaps, clippedViewPos); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2236:27: required from 'void seqan::_alignedReadsInsertGaps(TAlignedReadIter, TAlignedReadIter, TPos, TSize, TReadSeqStore&) [with TAlignedReadIter = AlignedReadStoreElement, void>*; TPos = long int; TSize = long int; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' + 2236 | insertGaps(gaps, insPos - rBegin, blkLen); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2321:40: required from 'void seqan::_twoWayMergeAlignments(TContigGapsGlobal&, TContigGapsPW&, TReadGaps&, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TAlignedReadIter, TReadSeqStore&) [with TContigGapsGlobal = Gaps, AnchorGaps, Alloc<> > > >; TContigGapsPW = Gaps, AnchorGaps, Alloc<> >, InfixSegment> > >; TReadGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TAlignedReadIter = AlignedReadStoreElement, void>*; TReadSeqStore = StringSet, Alloc<> >, Owner > >]' + 2321 | _alignedReadsInsertGaps(overlappingAlignedReadsBegin1, overlappingAlignedReadsEnd1, insPos, blkLen, readSeqStore); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2437:31: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2437 | _twoWayMergeAlignments( + | ~~~~~~~~~~~~~~~~~~~~~~^ + 2438 | contigGapsGlobal, contigGapsPW, readGaps, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2439 | firstOverlapOld, lastOverlapOld, firstOverlapNew, it, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 2440 | store.readSeqStore); + | ~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:34:16: required from here + 34 | readRecords(store, alignmentFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 773 | Iter > > result = lhs; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 775 | return result; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 165 | data_gaps(anchors), + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); + | ^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:34:16: required from here + 34 | readRecords(store, alignmentFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 175 | data_source(source), + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp:34:16: required from here + 34 | readRecords(store, alignmentFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:679:35: required from 'typename seqan::Iterator >::Type seqan::iter(T&, TPos, const Tag&) [with T = Gaps, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >; TPos = long int; TTag = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > >]' @@ -246687,6 +246723,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -246708,30 +246750,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -246771,6 +246789,24 @@ /usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -247255,11 +247291,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment4 -lrt -lz -lbz2 +[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/DependInfo.cmake "--color=" @@ -247268,6 +247304,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp +[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment4 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -247617,7 +247666,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:36: @@ -247662,7 +247710,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' 305 | TConstructor::construct(it, std::forward(param_)); @@ -247703,17 +247750,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_assignment5 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -247798,12 +247834,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, @@ -247851,27 +247881,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -247989,24 +247998,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -248192,6 +248183,96 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -248419,12 +248500,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -248440,58 +248515,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -248734,6 +248757,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 81%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 81%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp +[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -249167,19 +249216,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -249303,12 +249339,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -249361,27 +249391,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:56: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h: In instantiation of 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TVertexDescriptor&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TVertexDescriptor = unsigned int; TValue = long int; TCargo = unsigned int]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:1532:18: required from 'void seqan::findIntervals(String&, const Graph&, const TPropertyMap&, TValue, TValue) [with TSpec = Directed >; TPropertyMap = String, StorePointsOnly>, Alloc<> >; TValue = long int; TCargo = unsigned int]' @@ -249669,6 +249678,78 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] + 617 | strncpy(&buffer[0], file, pos); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /usr/include/c++/14/string:51: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, @@ -249914,12 +249995,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'std::string seqan::getAbsolutePath(const char*)': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] - 617 | strncpy(&buffer[0], file, pos); - | ^ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -249935,58 +250010,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -250214,6 +250237,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -MF CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o.d -o CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -250523,6 +250559,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.txt --verbose=1 /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -250548,6 +250586,12 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -250574,14 +250618,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution4 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -250963,19 +250999,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_interval_tree -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_interval_tree -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_simple_rna_seq_interval_tree -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp In file included from /usr/include/c++/14/string:51: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, @@ -250994,6 +251017,19 @@ /usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_interval_tree +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_interval_tree -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_tutorial_simple_rna_seq_interval_tree +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -251098,6 +251134,96 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -251325,96 +251451,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 82%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_tutorial_string_sets_assignment_2 +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, @@ -251430,19 +251479,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 82%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Built target demo_tutorial_string_sets_assignment_2 -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -251534,23 +251570,36 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_2_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_2_solution -lrt -lz -lbz2 +[ 82%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_tutorial_string_sets_assignment_2_solution +[ 82%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_2_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.txt --verbose=1 [ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_2_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Built target demo_tutorial_string_sets_assignment_2_solution +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -251560,7 +251609,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -251638,36 +251687,10 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 83%] Linking CXX executable ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.d CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o -o ../bin/demo_tutorial_simple_rna_seq_genequant_solution5 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp -[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_3_workshop_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_3_workshop_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution -make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp:3: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp:3: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -251677,7 +251700,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp:1: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp:1: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -251755,11 +251778,24 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_base -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_base.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_base.dir/link.d CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -o ../bin/demo_tutorial_string_sets_base -lrt -lz -lbz2 +[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_tutorial_string_sets_base +[ 83%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution +make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/base.cpp +[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_3_workshop_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_3_workshop_solution -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/DependInfo.cmake "--color=" @@ -251768,19 +251804,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality.cpp -[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.d CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o -o ../bin/demo_tutorial_string_sets_assignment_4_workshop_solution -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -251869,6 +251892,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_base.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_base.dir/link.d CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o -o ../bin/demo_tutorial_string_sets_base -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Built target demo_tutorial_string_sets_base +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp +[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_functionality +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o -o ../bin/demo_tutorial_string_sets_example_functionality -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Built target demo_tutorial_string_sets_example_functionality +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -251957,32 +252006,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_functionality -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o -o ../bin/demo_tutorial_string_sets_example_functionality -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_tutorial_string_sets_example_functionality -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -MF CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o.d -o CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp -[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_functionality_2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -o ../bin/demo_tutorial_string_sets_example_functionality_2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_tutorial_string_sets_example_functionality_2 -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -252071,6 +252094,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 83%] Linking CXX executable ../bin/demo_tutorial_string_sets_example_functionality_2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.d CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o -o ../bin/demo_tutorial_string_sets_example_functionality_2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Built target demo_tutorial_string_sets_example_functionality_2 +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 83%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp [ 83%] Linking CXX executable ../bin/demo_tutorial_vcf_io_base cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_base.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_base.dir/link.d CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o -o ../bin/demo_tutorial_vcf_io_base -lrt -lz -lbz2 @@ -252191,6 +252227,53 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here + 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here + 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:45, @@ -252309,30 +252392,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here - 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -252356,29 +252415,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:8:84: required from here - 8 | VcfFileIn vcfIn(toCString(getAbsolutePath("demos/tutorial/vcf_io/example.vcf"))); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h: In function 'int main()': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:617:16: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output truncated copying between 0 and 74 bytes from a string of length 82 [-Wstringop-truncation] 617 | strncpy(&buffer[0], file, pos); @@ -252387,7 +252423,7 @@ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, inlined from 'void seqan::readRecord(VcfRecord&, FormattedFile, Tag, TSpec>&) [with TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/vcf_file.h:209:15, - inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp:23:19: + inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:23:19: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -252406,7 +252442,7 @@ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::readRecord(VcfRecord&, VcfIOContext&, TForwardIter&, const Vcf&) [with TForwardIter = Iter, std::char_traits >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/read_vcf.h:192:43, inlined from 'void seqan::readRecord(VcfRecord&, FormattedFile, Tag, TSpec>&) [with TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/vcf_io/vcf_file.h:209:15, - inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp:23:19: + inlined from 'int main()' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp:23:19: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] 255 | throw BadLexicalCast(target, source); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -252417,11 +252453,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -[ 84%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.d CMakeFiles/demo_tutorial_vcf_io_solution1.dir/tutorial/vcf_io/solution1.cpp.o -o ../bin/demo_tutorial_vcf_io_solution1 -lrt -lz -lbz2 +[ 84%] Linking CXX executable ../bin/demo_tutorial_vcf_io_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.d CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o -o ../bin/demo_tutorial_vcf_io_example1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_tutorial_vcf_io_solution1 +[ 84%] Built target demo_tutorial_vcf_io_example1 make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/DependInfo.cmake "--color=" @@ -252430,11 +252466,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 84%] Building CXX object demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -MF CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o.d -o CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp -[ 84%] Linking CXX executable ../bin/demo_tutorial_vcf_io_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.d CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o -o ../bin/demo_tutorial_vcf_io_example1 -lrt -lz -lbz2 +[ 84%] Linking CXX executable ../bin/demo_tutorial_vcf_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.d CMakeFiles/demo_tutorial_vcf_io_solution1.dir/tutorial/vcf_io/solution1.cpp.o -o ../bin/demo_tutorial_vcf_io_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target demo_tutorial_vcf_io_example1 +[ 84%] Built target demo_tutorial_vcf_io_solution1 make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/DependInfo.cmake "--color=" @@ -252870,52 +252906,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -253011,6 +253001,45 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -253026,6 +253055,13 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -253047,54 +253083,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:2: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here - 139 | SeqFileIn seqIn(toCString(options.inputFile)); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -253132,13 +253120,18 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -253151,35 +253144,28 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' 257 | _open(*this, fileName, openMode, True()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here - 139 | SeqFileIn seqIn(toCString(options.inputFile)); - | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:37:43: required from here + 37 | GffFileIn file(toCString(fileName)); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -253189,17 +253175,35 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Ucsc_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >, TagList > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag >; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag >; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:43:45: required from here + 43 | UcscFileIn file1(toCString(fileName)); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -253209,26 +253213,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here 699 | if (!open(bamFile, bamFilename)) | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' 257 | _open(*this, fileName, openMode, True()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here - 139 | SeqFileIn seqIn(toCString(options.inputFile)); - | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:37:43: required from here + 37 | GffFileIn file(toCString(fileName)); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -253238,43 +253247,22 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Ucsc_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >, TagList > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag >; TDirection = Tag; TSpec = void; TThrowExceptions = True]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag >; TDirection = seqan::Tag; TSpec = void]' 257 | _open(*this, fileName, openMode, True()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:157:52: required from here - 157 | SeqFileOut seqOut(toCString(options.outputFile)); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here - 139 | SeqFileIn seqIn(toCString(options.inputFile)); - | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:43:45: required from here + 43 | UcscFileIn file1(toCString(fileName)); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -253302,7 +253290,7 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:2: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ @@ -253310,41 +253298,45 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGff_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:37:43: required from here - 37 | GffFileIn file(toCString(fileName)); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Ucsc_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >, TagList > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag >; TDirection = Tag; TSpec = void; TThrowExceptions = True]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag >; TDirection = seqan::Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' 257 | _open(*this, fileName, openMode, True()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:43:45: required from here - 43 | UcscFileIn file1(toCString(fileName)); - | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here + 139 | SeqFileIn seqIn(toCString(options.inputFile)); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -253379,47 +253371,22 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagGtf_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' - 257 | _open(*this, fileName, openMode, True()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:37:43: required from here - 37 | GffFileIn file(toCString(fileName)); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Ucsc_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >, TagList > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag >; TDirection = Tag; TSpec = void; TThrowExceptions = True]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag >; TDirection = seqan::Tag; TSpec = void]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' 257 | _open(*this, fileName, openMode, True()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/annotation_converter.cpp:43:45: required from here - 43 | UcscFileIn file1(toCString(fileName)); - | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here + 139 | SeqFileIn seqIn(toCString(options.inputFile)); + | ^ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -253455,6 +253422,75 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here + 139 | SeqFileIn seqIn(toCString(options.inputFile)); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:157:52: required from here + 157 | SeqFileOut seqOut(toCString(options.outputFile)); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = True]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:257:14: required from 'seqan::FormattedFile::FormattedFile(const char*, int) [with TFileFormat = seqan::Tag; TDirection = seqan::Tag; TSpec = void]' + 257 | _open(*this, fileName, openMode, True()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/workflows/knime_node.cpp:139:49: required from here + 139 | SeqFileIn seqIn(toCString(options.inputFile)); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, SuffixSegment>; typename Iterator >::Type = Iter >, SuffixSegment>, AdaptorIterator > >; Rooted = const Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment >, SuffixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter >, SuffixSegment>, AdaptorIterator > >; typename RemoveReference::Type = Segment >, SuffixSegment>; typename Iterator >::Type = Iter >, SuffixSegment>, AdaptorIterator > >]' @@ -253579,19 +253615,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/arg_align.cpp -[ 86%] Linking CXX executable ../bin/demo_tutorial_workflows_knime_node -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.d CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o -o ../bin/demo_tutorial_workflows_knime_node -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Built target demo_tutorial_workflows_knime_node -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_library_size.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/arg_align.cpp:26: @@ -253675,6 +253698,58 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +[ 86%] Linking CXX executable ../bin/demo_tutorial_workflows_knime_node +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.d CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o -o ../bin/demo_tutorial_workflows_knime_node -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Built target demo_tutorial_workflows_knime_node +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_library_size.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -253759,17 +253834,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -253778,34 +253842,6 @@ 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, @@ -253836,6 +253872,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 86%] Linking CXX executable ../bin/demo_unassigned_or_unused_arg_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -253862,6 +253900,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.d CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o -o ../bin/demo_unassigned_or_unused_arg_align -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Built target demo_unassigned_or_unused_arg_align +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_print_alignments.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -253913,291 +253962,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 86%] Linking CXX executable ../bin/demo_unassigned_or_unused_arg_align -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.d CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o -o ../bin/demo_unassigned_or_unused_arg_align -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Built target demo_unassigned_or_unused_arg_align -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_print_alignments.cpp -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_print_alignments.cpp:44: @@ -254318,6 +254082,27 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bam_print_alignments.cpp:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -254372,19 +254157,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 86%] Linking CXX executable ../bin/demo_unassigned_or_unused_bam_library_size -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.d CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -o ../bin/demo_unassigned_or_unused_bam_library_size -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Built target demo_unassigned_or_unused_bam_library_size -make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bamutil.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -254580,6 +254352,291 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +[ 86%] Linking CXX executable ../bin/demo_unassigned_or_unused_bam_library_size +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.d CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o -o ../bin/demo_unassigned_or_unused_bam_library_size -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Built target demo_unassigned_or_unused_bam_library_size +make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 86%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bamutil.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bamutil.cpp:44: @@ -254678,184 +254735,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bamutil.cpp:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bamutil.cpp:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -255083,6 +254962,38 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -255107,6 +255018,131 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bamutil.cpp:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/bamutil.cpp:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ [ 86%] Linking CXX executable ../bin/demo_unassigned_or_unused_bam_print_alignments cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/link.d CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o -o ../bin/demo_unassigned_or_unused_bam_print_alignments -lrt -lz -lbz2 @@ -255222,27 +255258,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -255514,6 +255529,27 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -255877,6 +255913,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_benchmark_stream +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/link.d CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o -o ../bin/demo_unassigned_or_unused_benchmark_stream -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_benchmark_stream +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_format.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -256032,32 +256081,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_benchmark_stream_write -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.d CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/unassigned_or_unused/benchmark_stream_write.cpp.o -o ../bin/demo_unassigned_or_unused_benchmark_stream_write -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_benchmark_stream_write -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_format.cpp -[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_benchmark_stream -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/link.d CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o -o ../bin/demo_unassigned_or_unused_benchmark_stream -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_benchmark_stream -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -256157,110 +256180,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp:1: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_readwrite -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -o ../bin/demo_unassigned_or_unused_file_readwrite -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_file_readwrite -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_speed.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -256532,6 +256451,123 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_benchmark_stream_write +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.d CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/unassigned_or_unused/benchmark_stream_write.cpp.o -o ../bin/demo_unassigned_or_unused_benchmark_stream_write -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_benchmark_stream_write +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_readwrite.cpp:1: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_readwrite +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o -o ../bin/demo_unassigned_or_unused_file_readwrite -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_file_readwrite +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/file_speed.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -256620,11 +256656,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_speed -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -o ../bin/demo_unassigned_or_unused_file_speed -lrt -lz -lbz2 +[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_format +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -o ../bin/demo_unassigned_or_unused_file_format -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_file_speed +[ 87%] Built target demo_unassigned_or_unused_file_format make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/DependInfo.cmake "--color=" @@ -256724,19 +256760,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_format -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o -o ../bin/demo_unassigned_or_unused_file_format -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target demo_unassigned_or_unused_file_format -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -256820,89 +256843,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +[ 87%] Linking CXX executable ../bin/demo_unassigned_or_unused_file_speed +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.d CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o -o ../bin/demo_unassigned_or_unused_file_speed -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_file_speed +make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -256954,16 +256907,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -257020,21 +256963,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TFunctor = seqan::FunctorComplement >; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -257066,6 +256994,89 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/find_wild.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/filter_sam.cpp:17: @@ -257097,6 +257108,31 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -258735,6 +258771,168 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:278:5: note: because 'seqan::Index >, seqan::IndexQGram > >' has user-provided 'seqan::Index >::Index(const seqan::Index >&) [with TText_ = seqan::String >; TShapeSpec = seqan::UngappedShape<2>; TSpec = seqan::Tag]' 278 | Index(Index const &other): | ^~~~~ +[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_find +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_find.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_find.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_find.dir/unassigned_or_unused/index_find.cpp.o -o ../bin/demo_unassigned_or_unused_index_find -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 88%] Built target demo_unassigned_or_unused_index_find +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_find_stringset.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_find_stringset.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_find_stringset.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -258962,198 +259160,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -[ 88%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_find -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_find.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_find.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_find.dir/unassigned_or_unused/index_find.cpp.o -o ../bin/demo_unassigned_or_unused_index_find -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target demo_unassigned_or_unused_index_find -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_find_stringset.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_find_stringset.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_find_stringset.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -259196,6 +259202,36 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -264033,19 +264069,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 88%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_sufarray.cpp -[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_mums -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_mums.dir/unassigned_or_unused/index_mums.cpp.o -o ../bin/demo_unassigned_or_unused_index_mums -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_index_mums -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -264445,6 +264468,32 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_mums +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_mums.dir/unassigned_or_unused/index_mums.cpp.o -o ../bin/demo_unassigned_or_unused_index_mums -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Built target demo_unassigned_or_unused_index_mums +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/index_supermaxrepeats.cpp +[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_sufarray +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -o ../bin/demo_unassigned_or_unused_index_sufarray -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Built target demo_unassigned_or_unused_index_sufarray +make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, @@ -264594,6 +264643,97 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp:4: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -264844,8 +264984,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_sufarray -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.txt --verbose=1 +[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_iterator +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:138: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h: In instantiation of 'void seqan::_clear(Iter >&) [with TIndex = Index > >; TSpec = BottomUp<>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_stree.h:2236:15: required from 'void seqan::clear(Iter >&) [with TIndex = Index > >; TSpec = BottomUp<>]' @@ -264870,6 +265010,10 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_esa_base.h:222:9: note: because 'seqan::VertexEsa' has user-provided 'seqan::VertexEsa::VertexEsa(const seqan::VertexEsa&) [with TSize = long unsigned int]' 222 | VertexEsa(VertexEsa const &other): | ^~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.d CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -o ../bin/demo_unassigned_or_unused_iterator -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Built target demo_unassigned_or_unused_iterator +make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/depend In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment >, InfixSegment>; typename Iterator >::Type = Iter >, InfixSegment>, AdaptorIterator > >; Rooted = const Tag]': @@ -264901,6 +265045,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/minimapper.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const String >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment >, seqan::InfixSegment>; TIterator = const char*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment >, seqan::InfixSegment>]' @@ -264930,225 +265081,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const seqan::String >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o -o ../bin/demo_unassigned_or_unused_index_sufarray -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_index_sufarray -make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp:4: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/iterator.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_iterator -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.d CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o -o ../bin/demo_unassigned_or_unused_iterator -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_iterator -make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/minimapper.cpp -[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_supermaxrepeats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -o ../bin/demo_unassigned_or_unused_index_supermaxrepeats -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_index_supermaxrepeats -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -265299,6 +265231,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 89%] Linking CXX executable ../bin/demo_unassigned_or_unused_index_supermaxrepeats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.d CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o -o ../bin/demo_unassigned_or_unused_index_supermaxrepeats -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Built target demo_unassigned_or_unused_index_supermaxrepeats +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: @@ -265496,7 +265441,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_modifier_modreverse In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { @@ -265516,7 +265460,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 59 | struct _mapInverse : public std::unary_function { @@ -265544,6 +265487,97 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modreverse.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -265551,8 +265585,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.d CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -o ../bin/demo_unassigned_or_unused_modifier_modreverse -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/minimapper.cpp:37: @@ -265568,15 +265600,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 90%] Built target demo_unassigned_or_unused_modifier_modreverse -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -265629,6 +265652,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_modifier_modreverse +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.d CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o -o ../bin/demo_unassigned_or_unused_modifier_modreverse -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Built target demo_unassigned_or_unused_modifier_modreverse +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -266047,90 +266083,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp:3: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -266264,19 +266216,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp:10:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 10 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::ModView > > >, seqan::Tag >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, InfixSegment>, ModView > > >, Tag >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, InfixSegment>, ModView > > >, Tag >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -266480,6 +266419,103 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp:3: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/modifier_modview.cpp:10:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 10 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ [ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_modifier_modview cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/link.d CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o -o ../bin/demo_unassigned_or_unused_modifier_modview -lrt -lz -lbz2 @@ -266911,6 +266947,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/unassigned_or_unused/rooted_iterator.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/unassigned_or_unused/rooted_iterator.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/unassigned_or_unused/rooted_iterator.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/unassigned_or_unused/rooted_iterator.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/rooted_iterator.cpp +[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_minimapper +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.d CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -o ../bin/demo_unassigned_or_unused_minimapper -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Built target demo_unassigned_or_unused_minimapper +make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -267007,16 +267056,14 @@ /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/link.d CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/unassigned_or_unused/rooted_iterator.cpp.o -o ../bin/demo_unassigned_or_unused_rooted_iterator -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target demo_unassigned_or_unused_rooted_iterator -make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp -[ 90%] Linking CXX executable ../bin/demo_unassigned_or_unused_minimapper -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.txt --verbose=1 +[ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, @@ -267140,9 +267187,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.d CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o -o ../bin/demo_unassigned_or_unused_minimapper -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 90%] Built target demo_unassigned_or_unused_minimapper In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -267151,14 +267195,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -267203,55 +267239,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ofstream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' - 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = unsigned int; TPos = long int; TNum = int]' - 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:214:31: required from here - 214 | printAlignment(ascii, layout, store, contigs[i], l, r, beginLine, endLine); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 773 | Iter > > result = lhs; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] - 775 | return result; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' - 112 | Iter const & operator = (Iter const & other_) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -267336,6 +267323,82 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:90: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'seqan::Iter > > seqan::operator+(const Iter > >&, TDifference) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; TDifference = long unsigned int]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1618:57: required from 'void seqan::_printRead(TStream&, AlignedReadLayout&, TContigGaps&, TReadGaps&, TAlignedRead&, TLine) [with TStream = std::basic_ofstream; TContigGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TReadGaps = Gaps >, AnchorGaps, Alloc<> > > >; TAlignedRead = AlignedReadStoreElement, void>; TLine = int]' + 1618 | TContigIterator cit = begin(contigGaps, Standard()) + (_min(alignedRead.beginPos, alignedRead.endPos) + beginPosition(readGaps)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:1777:23: required from 'void seqan::printAlignment(TStream&, AlignedReadLayout&, FragmentStore&, TContigId, TPos, TPos, TNum, TNum) [with TStream = std::basic_ofstream; TSpec = void; TConfig = FragmentStoreConfig; TContigId = unsigned int; TPos = long int; TNum = int]' + 1777 | _printRead(stream, layout, contigGaps, readGaps, align, line); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:214:31: required from here + 214 | printAlignment(ascii, layout, store, contigs[i], l, r, beginLine, endLine); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:773:58: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 773 | Iter > > result = lhs; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:775:12: warning: implicitly-declared 'constexpr seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >::Iter(const seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >&)' is deprecated [-Wdeprecated-copy] + 775 | return result; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' + 112 | Iter const & operator = (Iter const & other_) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:37: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h: In instantiation of 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_base.h:250:17: required from 'typename seqan::Reference >::Type seqan::operator*(Iter&) [with TContainer = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TSpec = GapsIterator, Alloc<> > > >; typename Reference >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 250 | return value(me); @@ -267383,6 +267446,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -267408,21 +267478,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sample_seqs.cpp:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -267524,6 +267592,45 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -267558,6 +267665,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -267590,25 +267704,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -267690,180 +267785,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::InfixSegment>, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' - 996 | if (!open(seqFile, toCString(fileNameList[f]))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' - 1035 | return loadContigs(store, fileNames, loadSeqs); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' - 1043 | return loadContigs(store, fileNames, true); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:134:25: required from here - 134 | if (!loadContigs(store, options.fileRefIn.c_str())) - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 165 | data_gaps(anchors), - | ^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); - | ^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:142:16: required from here - 142 | readRecords(store, samFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' - 887 | create(me, value_); - | ~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 135 | assignValue(*this, value_); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 175 | data_source(source), - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' - 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' - 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' - 373 | readRecords(store, bamFile, FragStoreImportFlags()); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:142:16: required from here - 142 | readRecords(store, samFile); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -267912,6 +267833,38 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:996:18: required from 'bool seqan::loadContigs(FragmentStore&, const StringSet > >&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig]' + 996 | if (!open(seqFile, toCString(fileNameList[f]))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1035:23: required from 'bool seqan::loadContigs(FragmentStore&, const CharString&, bool) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; CharString = String >]' + 1035 | return loadContigs(store, fileNames, loadSeqs); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io.h:1043:23: required from 'bool seqan::loadContigs(FragmentStore&, const TFileNames&) [with TFSSpec = void; TFSConfig = FragmentStoreConfig; TFileNames = const char*]' + 1043 | return loadContigs(store, fileNames, true); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:134:25: required from here + 134 | if (!loadContigs(store, options.fileRefIn.c_str())) + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -267988,6 +267941,89 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:165:9: required from 'seqan::Gaps >::Gaps(const TGapAnchors&) [with TSource = seqan::Tag; TGapAnchors = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 165 | data_gaps(anchors), + | ^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2393:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2393 | TContigGapsPW contigGapsPW(/*contigInfix, */gaps[it->id - offsetRecord]); + | ^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:142:16: required from here + 142 | readRecords(store, samFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = const Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:887:15: required from 'void seqan::assignValue(Holder >&, const TSource&) [with TValue = Segment, Alloc<> >, InfixSegment>; TSource = Segment, Alloc<> >, InfixSegment>]' + 887 | create(me, value_); + | ~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:135:20: required from 'seqan::Holder >::Holder(const THostValue&) [with TValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; THostValue = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 135 | assignValue(*this, value_); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_anchor.h:175:9: required from 'seqan::Gaps >::Gaps(const TSourceNoConstNoRef&, TGapAnchors&) [with TSource = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TGapAnchors = seqan::String, seqan::Alloc<> >; TSourceNoConstNoRef = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 175 | data_source(source), + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2394:29: required from 'void seqan::convertPairWiseToGlobalAlignment(FragmentStore&, TContigGapsString&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigGapsString = StringSet, Alloc<> >, Owner > >]' + 2394 | TReadGaps readGaps(store.readSeqStore[it->readId], it->gaps); + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:337:41: required from 'void seqan::readRecords(FragmentStore&, BamIOContext&, TForwardIter&, const TFormat&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' + 337 | convertPairWiseToGlobalAlignment(store, contigAnchorGaps); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:361:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&, const FragStoreImportFlags&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 361 | readRecords(store, ctx, directionIterator(bamFile, Input()), format(bamFile), importFlags); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:373:16: required from 'void seqan::readRecords(FragmentStore&, FormattedFile, TDirection, TSpec>&) [with TFSSpec = void; TConfig = FragmentStoreConfig; TDirection = Tag; TSpec = void]' + 373 | readRecords(store, bamFile, FragStoreImportFlags()); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/sam2svg.cpp:142:16: required from here + 142 | readRecords(store, samFile); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -269024,263 +269060,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/interval_tree.h:288:5: note: because 'seqan::IntervalTreeNode > > >' has user-provided 'seqan::IntervalTreeNode::IntervalTreeNode(const seqan::IntervalTreeNode&) [with TInterval = seqan::IntervalAndCargo > >]' 288 | IntervalTreeNode(IntervalTreeNode const & other) : | ^~~~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, - inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -270435,6 +270214,263 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19, + inlined from 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_io_sam.h:573:15: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_readOneAlignment(FragmentStore&, TContigAnchorGaps&, TMatchMateInfos&, BamIOContext&, TForwardIter&, const TFormat&, FragStoreSAMContext >&, const FragStoreImportFlags&) [with TSpec = void; TConfig = FragmentStoreConfig; TContigAnchorGaps = StringSet, Alloc<> >, Owner > >; TMatchMateInfos = String, Alloc<> >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TForwardIter = Iter >, StreamIterator > >; TFormat = TagSelector, TagList > > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 91%] Linking CXX executable ../bin/demo_unassigned_or_unused_sam2svg cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/link.d CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o -o ../bin/demo_unassigned_or_unused_sam2svg -lrt -lz -lbz2 @@ -271329,6 +271365,19 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp +[ 91%] Linking CXX executable ../bin/demo_unassigned_or_unused_segmentalignment +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.d CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/unassigned_or_unused/segmentalignment.cpp.o -o ../bin/demo_unassigned_or_unused_segmentalignment -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 91%] Built target demo_unassigned_or_unused_segmentalignment +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 91%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -271420,32 +271469,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/solution1.cpp -[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_segmentalignment -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.d CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/unassigned_or_unused/segmentalignment.cpp.o -o ../bin/demo_unassigned_or_unused_segmentalignment -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target demo_unassigned_or_unused_segmentalignment -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -271537,6 +271560,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -271628,11 +271664,11 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -lrt -lz -lbz2 +[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_solution1 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats +[ 92%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/DependInfo.cmake "--color=" @@ -271641,11 +271677,11 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/count_characters.cpp -[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_solution1 -lrt -lz -lbz2 +[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 +[ 92%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/DependInfo.cmake "--color=" @@ -271667,19 +271703,6 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/replace_as.cpp -[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -271764,6 +271787,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -271771,6 +271796,30 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp +[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_replace_as +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_replace_as -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -271855,8 +271904,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 92%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_replace_as -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -271864,30 +271911,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_replace_as -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 92%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp -[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/example1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -271979,6 +272002,19 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/example1.cpp [ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o -o ../bin/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -lrt -lz -lbz2 @@ -272083,19 +272119,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_example1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_example1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -272187,23 +272210,49 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:7: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:2: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_example1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_example1 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:7: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp:2: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 113 | struct FunctorLowcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -272278,32 +272327,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp -[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -272395,8 +272418,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.txt --verbose=1 [ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_reader_demo cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution1.cpp +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_reader_demo -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -272474,8 +272521,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_reader_demo -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -272483,15 +272528,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution2.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 1338 | struct testIODone : public std::unary_function @@ -272499,19 +272535,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution3.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -272603,18 +272626,31 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution2 +[ 93%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution2 +[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.txt --verbose=1 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution1 -lrt -lz -lbz2 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution2 -lrt -lz -lbz2 make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 +[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/depend make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/depend make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o +[ 94%] Building CXX object demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution3.cpp cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/c++ -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -MF CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o.d -o CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, @@ -272700,26 +272736,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution3 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution3 -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 -make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 94%] Building CXX object apps/alf/CMakeFiles/alf.dir/alf.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/alf/CMakeFiles/alf.dir/alf.cpp.o -MF CMakeFiles/alf.dir/alf.cpp.o.d -o CMakeFiles/alf.dir/alf.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -272811,6 +272827,15 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +[ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = const char*]', inlined from 'int main(int, const char**)' at /build/reproducible-path/seqan2-2.4.0+dfsg/demos/unassigned_or_unused/tutorials_custim_io/solution4.cpp:23:33: @@ -272836,6 +272861,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution3 -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 94%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 +make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 94%] Building CXX object apps/alf/CMakeFiles/alf.dir/alf.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/alf/CMakeFiles/alf.dir/alf.cpp.o -MF CMakeFiles/alf.dir/alf.cpp.o.d -o CMakeFiles/alf.dir/alf.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp [ 94%] Linking CXX executable ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution4 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos && /usr/bin/cmake -E cmake_link_script CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wno-unused-parameter -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.d CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o -o ../bin/demo_unassigned_or_unused_tutorials_custim_io_solution4 -lrt -lz -lbz2 @@ -272948,38 +272984,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -273075,6 +273079,38 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -273121,6 +273157,37 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/statistics.h:41, @@ -273144,6 +273211,14 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -273208,24 +273283,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -273381,19 +273438,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 57 | struct _skew7NCompMulti : public std::binary_function { @@ -273413,41 +273457,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 352 | public std::binary_function @@ -273485,6 +273494,33 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 2155 | public std::binary_function< @@ -273566,49 +273602,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h:88:27: note: initializing argument 1 of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]' 88 | Proxy(TIterator const _it) | ~~~~~~~~~~~~~~~~^~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:59: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/af_n2.h: In instantiation of 'void seqan::_alignmentFreeComparison(Matrix&, const TStringSet&, const AFScore >&) [with TValue = double; TStringSet = StringSet, Alloc<> > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_comparison.h:101:29: required from 'void seqan::alignmentFreeComparison(Matrix&, const TStringSet&, const TComparisonMethod&) [with TStringSet = StringSet, Alloc<> > >; TValue = double; TComparisonMethod = AFScore >]' - 101 | _alignmentFreeComparison(scoreMatrix, sequenceSet, comparisonMethod); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:188:32: required from here - 188 | alignmentFreeComparison(myMatrix, mySequenceSet, myScoreN2); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/af_n2.h:189:64: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::CountingIteratorImpl_ > >& seqan::Iter >, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter >, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] - 189 | itStandardisedKmerCounts = begin(standardisedKmerCounts); - | ^ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::StringSet >]' - 105 | Iter(Iter const & other_) : - | ^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -273634,28 +273627,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:164:13: required from here - 164 | open(seqFile, toCString(inFile)); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/proxy_iterator.h: In instantiation of 'seqan::Proxy >::Proxy(TIterator) [with TIterator = seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:205:12: required from 'typename seqan::Reference > > >::Type seqan::value(Iter > >&) [with TGaps = Gaps, Alloc<> >, AnchorGaps, Alloc<> > > >; TGapAnchors = String, Alloc<> >; typename Reference > > >::Type = Proxy, Alloc<> >, AnchorGaps, Alloc<> > > >, GapsIterator, Alloc<> > > > > > >]' 205 | return TProxy(it); @@ -273678,31 +273649,23 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_iterator_anchor.h:112:18: note: because 'seqan::Iter, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >, seqan::GapsIterator, seqan::Alloc<> > > > >' has user-provided 'const seqan::Iter > >& seqan::Iter > >::operator=(const seqan::Iter > >&) [with TGaps_ = seqan::Gaps, seqan::Alloc<> >, seqan::AnchorGaps, seqan::Alloc<> > > >; TGapAnchors_ = seqan::String, seqan::Alloc<> >]' 112 | Iter const & operator = (Iter const & other_) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free.h:59: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/af_n2.h: In instantiation of 'void seqan::_alignmentFreeComparison(Matrix&, const TStringSet&, const AFScore >&) [with TValue = double; TStringSet = StringSet, Alloc<> > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/alignment_free_comparison.h:101:29: required from 'void seqan::alignmentFreeComparison(Matrix&, const TStringSet&, const TComparisonMethod&) [with TStringSet = StringSet, Alloc<> > >; TValue = double; TComparisonMethod = AFScore >]' + 101 | _alignmentFreeComparison(scoreMatrix, sequenceSet, comparisonMethod); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:188:32: required from here + 188 | alignmentFreeComparison(myMatrix, mySequenceSet, myScoreN2); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/alignment_free/af_n2.h:189:64: warning: implicitly-declared 'constexpr seqan::Iter >, seqan::CountingIteratorImpl_ > >& seqan::Iter >, seqan::CountingIteratorImpl_ > >::operator=(const seqan::Iter >, seqan::CountingIteratorImpl_ > >&)' is deprecated [-Wdeprecated-copy] + 189 | itStandardisedKmerCounts = begin(standardisedKmerCounts); + | ^ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_position.h:105:5: note: because 'seqan::Iter >, seqan::CountingIteratorImpl_ > >' has user-provided 'seqan::Iter > >::Iter(const seqan::Iter > >&) [with TContainer = seqan::StringSet >]' + 105 | Iter(Iter const & other_) : + | ^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -273729,22 +273692,25 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:164:13: required from here - 164 | open(seqFile, toCString(inFile)); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar_base.h:21:14: required from 'bool loadReadsCroppedId(seqan::FragmentStore&, TFileName&) [with TFSSpec = seqan::MyFragmentStoreConfig; TFSConfig = seqan::FragmentStoreConfig; TFileName = seqan::String >]' + 21 | if (!open(seqFileIn, toCString(fileName))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.h:996:27: required from 'bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]' + 996 | loadReadsCroppedId(store, options.readFileName); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:294:24: required from here + 294 | postProcessMain(options, BsNonSimple()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -273754,10 +273720,13 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -273782,14 +273751,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ @@ -273802,17 +273765,22 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here 699 | if (!open(bamFile, bamFilename)) | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:45: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -273831,13 +273799,11 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -273862,11 +273828,38 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ @@ -273885,6 +273878,32 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Embl_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -273896,6 +273915,29 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:164:13: required from here + 164 | open(seqFile, toCString(inFile)); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList, TagList > > > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar_base.h:21:14: required from 'bool loadReadsCroppedId(seqan::FragmentStore&, TFileName&) [with TFSSpec = seqan::MyFragmentStoreConfig; TFSConfig = seqan::FragmentStoreConfig; TFileName = seqan::String >]' 21 | if (!open(seqFileIn, toCString(fileName))) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -273914,7 +273956,7 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -273937,7 +273979,7 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -273948,15 +273990,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' 739 | return _open(file, fileName, openMode, False()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar_base.h:21:14: required from 'bool loadReadsCroppedId(seqan::FragmentStore&, TFileName&) [with TFSSpec = seqan::MyFragmentStoreConfig; TFSConfig = seqan::FragmentStoreConfig; TFileName = seqan::String >]' - 21 | if (!open(seqFileIn, toCString(fileName))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.h:996:27: required from 'bool postProcessMain(TOptions&, const TModel&) [with TOptions = AppOptions; TModel = seqan::Tag]' - 996 | loadReadsCroppedId(store, options.readFileName); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/bisar.cpp:294:24: required from here - 294 | postProcessMain(options, BsNonSimple()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf/alf.cpp:164:13: required from here + 164 | open(seqFile, toCString(inFile)); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -274199,6 +274235,233 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_msa.h:44, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/casbar.cpp:45: @@ -274221,6 +274484,34 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/consensus/overlap_info_computation.h:38, @@ -274523,233 +274814,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/casbar_realignment.h:17:23: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 17 | public ::std::binary_function < typename Value::Type, typename Value::Type, bool > | ^~~~~~~~~~~~~~~ @@ -274798,34 +274862,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:231:19, - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_file.h:233:19: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const TagSelector&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >; TTagList = TagList, TagList > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -275411,17 +275447,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -275454,16 +275479,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -275510,16 +275525,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/four2three.cpp:40: /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/four2three.h:14:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 14 | struct ConvertCT : public ::std::unary_function @@ -275741,6 +275746,37 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -277134,257 +277170,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ [ 95%] Linking CXX executable ../../bin/dfi cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi && /usr/bin/cmake -E cmake_link_script CMakeFiles/dfi.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/dfi.dir/link.d CMakeFiles/dfi.dir/dfi.cpp.o -o ../../bin/dfi -lrt -lz -lbz2 @@ -277787,8 +277572,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -[ 95%] Linking CXX executable ../../bin/compute_gain -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/compute_gain.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -277796,17 +277579,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/compute_gain.dir/link.d CMakeFiles/compute_gain.dir/compute_gain.cpp.o -o ../../bin/compute_gain -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target compute_gain -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Building CXX object apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/c++ -DFIONA_ILLUMINA -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o -MF CMakeFiles/fiona_illumina.dir/fiona.cpp.o.d -o CMakeFiles/fiona_illumina.dir/fiona.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:118: @@ -277899,152 +277671,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:4412:9: note: in expansion of macro 'SEQAN_PROTIMESTART' 4412 | SEQAN_PROTIMESTART(search); | ^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:117: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/parallel/base.h:36, - from /usr/include/c++/14/parallel/algobase.h:40, - from /usr/include/c++/14/parallel/algorithm:36, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:81: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: @@ -278488,22 +278114,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = GenBank_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList, TagList > > > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -278530,307 +278140,257 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1814 | struct _qgramComp : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 1833 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 46 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 85 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 98 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 112 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 127 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 110 | public std::binary_function < SkewDCStream, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 143 | public std::binary_function < SkewDCStream >, Pack> >, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 65 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 99 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 118 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 132 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 154 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 175 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 185 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | struct _skew7NCompMulti : public std::binary_function { - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 97 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 141 | public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 59 | struct _mapInverse : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 164 | struct _mapInverseMulti : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 144 | struct _filterGlobalizer : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 556 | public std::binary_function< Pair, Pair, bool> - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:118: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h: In instantiation of 'void seqan::Handler >, seqan::MapperAsyncWriter>::end() [with TValue = seqan::Triple >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >; TConfig = seqan::MapperConfigSize >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_base.h:633:42: required from 'void seqan::Handler, seqan::Tag >::end() [with THandler1 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::Tag >, seqan::MapperMemAdapter>; THandler2 = seqan::Handler >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, seqan::MapperSpec >, seqan::Tuple, seqan::Tuple, 6, seqan::BitPacked<> >, seqan::Tag >, long unsigned int>, long unsigned int, seqan::File > > > >, seqan::MapperAsyncWriter>]' 633 | else handler2->end(); @@ -279767,6 +279327,482 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/triple_packed.h:82:12: note: because 'seqan::Triple, seqan::Tuple, seqan::Tag >' has user-provided 'seqan::Triple >::Triple(const seqan::Triple >&) [with T1 = long unsigned int; T2 = seqan::Tuple; T3 = seqan::Tuple]' 82 | inline Triple(Triple const &_p) | ^~~~~~ +[ 95%] Linking CXX executable ../../bin/compute_gain +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/cmake -E cmake_link_script CMakeFiles/compute_gain.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/compute_gain.dir/link.d CMakeFiles/compute_gain.dir/compute_gain.cpp.o -o ../../bin/compute_gain -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Built target compute_gain +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Building CXX object apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona && /usr/bin/c++ -DFIONA_ILLUMINA -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o -MF CMakeFiles/fiona_illumina.dir/fiona.cpp.o.d -o CMakeFiles/fiona_illumina.dir/fiona.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:117: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/parallel/base.h:36, + from /usr/include/c++/14/parallel/algobase.h:40, + from /usr/include/c++/14/parallel/algorithm:36, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:81: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:47, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:46: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1814 | struct _qgramComp : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1833:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 1833 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 46 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:85:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 85 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:98:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 98 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:112:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 112 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:127:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 127 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:144:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:154:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 110 | public std::binary_function < SkewDCStream, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:143:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 143 | public std::binary_function < SkewDCStream >, Pack> >, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:111: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 65 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:99:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 99 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:118:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 118 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:132:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 132 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:154:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 154 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:175:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 175 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7.h:185:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 185 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:114: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:57:43: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | struct _skew7NCompMulti : public std::binary_function { + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:97:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 97 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew7_multi.h:141:21: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 141 | public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:121: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:59:38: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 59 | struct _mapInverse : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_lcp.h:164:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 164 | struct _mapInverseMulti : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:125: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_bwt.h:144:44: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 144 | struct _filterGlobalizer : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:131: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_shims.h:556:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 556 | public std::binary_function< Pair, Pair, bool> + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:118: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/fiona.cpp:1636:34: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1636 | struct LessOverlap : public std::binary_function | ^~~~~~~~~~~~~~~ @@ -281573,6 +281609,27 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -281844,27 +281901,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, @@ -282648,8 +282684,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:102:46: note: initializing argument 1 of 'seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]' 102 | Segment(typename Parameter_::Type _host, typename Position::Type _begin_index, typename Position::Type _end_index): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -[ 95%] Linking CXX executable ../../bin/fx_fastq_stats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/fx_fastq_stats.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/find.h:45: @@ -282677,17 +282711,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/fx_fastq_stats.dir/link.d CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -o ../../bin/fx_fastq_stats -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target fx_fastq_stats -make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Building CXX object apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -MF CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o.d -o CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/join_mates.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:103:29: required from 'seqan::Segment::Segment(typename seqan::Parameter_ >::Type>::Type, typename seqan::Position >::Type>::Type, typename seqan::Position >::Type>::Type) [with THost_ = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Parameter_ >::Type>::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Host >::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; typename seqan::Position >::Type>::Type = long unsigned int]' @@ -283400,84 +283423,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/join_mates.cpp:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/istream:40, - from /usr/include/c++/14/sstream:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/join_mates.cpp:35: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = Segment, Alloc<> >, InfixSegment>]' 305 | TConstructor::construct(it, std::forward(param_)); @@ -283570,6 +283515,97 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +[ 95%] Linking CXX executable ../../bin/fx_fastq_stats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/fx_fastq_stats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/fx_fastq_stats.dir/link.d CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -o ../../bin/fx_fastq_stats -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Built target fx_fastq_stats +make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 95%] Building CXX object apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.10\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -MF CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o.d -o CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/join_mates.cpp +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/join_mates.cpp:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/istream:40, + from /usr/include/c++/14/sstream:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/join_mates.cpp:35: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 393 | struct PosLess_ : public std::binary_function @@ -284684,6 +284720,24 @@ make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 95%] Building CXX object apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o -MF CMakeFiles/mason_genome.dir/mason_genome.cpp.o.d -o CMakeFiles/mason_genome.dir/mason_genome.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_genome.cpp +In file included from /usr/include/c++/14/string:51: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, + inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, + inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, + inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, + inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, + inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, + inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, + inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, + inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, + inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: +/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] + 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -284788,24 +284842,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:51: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = const char; _Up = char; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = const char*; _OI = char*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, - inlined from 'void seqan::_arrayCopyForwardDefault(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:635:14, - inlined from 'void seqan::arrayCopyForward(TSource1, TSource2, TTarget) [with TTarget = char*; TSource1 = const char*; TSource2 = const char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:644:29, - inlined from 'void seqan::_arrayConstructCopyPointer(TValueSource*, TValueSource*, TValueTarget*, True) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1003:21, - inlined from 'void seqan::arrayConstructCopy(TValueSource*, TValueSource*, TValueTarget*) [with TValueSource = const char; TValueTarget = char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:1031:31, - inlined from 'static void seqan::AssignString_::assign_(TTarget&, TSource&) [with TTarget = seqan::String >; TSource = const char [1]; TExpand = seqan::Tag]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1011:31, - inlined from 'void seqan::assign(String&, const TSource&, Tag) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]; TExpand = TagGenerous_]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:1056:42, - inlined from 'void seqan::assign(String&, const TSource&) [with TTargetValue = char; TTargetSpec = Alloc<>; TSource = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_base.h:992:11, - inlined from 'void seqan::assignValue(StringSet >&, TPos, const TSequence&) [with TString = String >; TSpec = Tag; TPos = long unsigned int; TSequence = char [1]]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/string_set_owner.h:194:11, - inlined from 'void seqan::_storeRemoveTempAnnoNames(FragmentStore&) [with TConfig = FragmentStoreConfig; TSpec = void]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:661:28: -/usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' forming offset 1 is out of the bounds [0, 1] [-Warray-bounds=] - 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -285331,6 +285367,84 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -285433,162 +285547,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, @@ -285876,6 +285834,91 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, @@ -285899,6 +285942,32 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:38: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 351 | struct insertBucket : public std::unary_function @@ -285937,6 +286006,53 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here + 143 | if (!open(outStream, toCString(options.methFastaOutFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 373 | struct SetLess_ : public std::binary_function @@ -285963,6 +286079,57 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here + 143 | if (!open(outStream, toCString(options.methFastaOutFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -286012,6 +286179,29 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here + 143 | if (!open(outStream, toCString(options.methFastaOutFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -286062,13 +286252,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:110: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/pipe_merger7.h:110:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 110 | public std::binary_function < SkewDCStream, @@ -286196,153 +286379,6 @@ 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:38: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here - 143 | if (!open(outStream, toCString(options.methFastaOutFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here - 143 | if (!open(outStream, toCString(options.methFastaOutFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_methylation.cpp:143:14: required from here - 143 | if (!open(outStream, toCString(options.methFastaOutFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_frag_sequencing.cpp:38: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) @@ -286646,8 +286682,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 97%] Linking CXX executable ../../bin/mason_frag_sequencing -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_frag_sequencing.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -286661,17 +286695,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_frag_sequencing.dir/link.d CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -o ../../bin/mason_frag_sequencing -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target mason_frag_sequencing -make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -MF CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d -o CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -287011,98 +287034,17 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp:45: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/istream:40, - from /usr/include/c++/14/fstream:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp:43: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ +[ 97%] Linking CXX executable ../../bin/mason_frag_sequencing +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_frag_sequencing.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_frag_sequencing.dir/link.d CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -o ../../bin/mason_frag_sequencing -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Built target mason_frag_sequencing +make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Vcf_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' @@ -287126,6 +287068,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -MF CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d -o CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -287170,14 +287114,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -287274,6 +287210,106 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp:45: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/istream:40, + from /usr/include/c++/14/fstream:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp:43: +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_materializer.cpp:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -287906,17 +287942,6 @@ | ^~~~~~~~~~~~~~ [ 97%] Linking CXX executable ../../bin/mason_variator cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_variator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_variator.dir/link.d CMakeFiles/mason_variator.dir/mason_variator.cpp.o -o ../../bin/mason_variator -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target mason_variator -make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -MF CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d -o CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -287929,6 +287954,7 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_variator.dir/link.d CMakeFiles/mason_variator.dir/mason_variator.cpp.o -o ../../bin/mason_variator -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 63 | struct LessPairI1_ : public std::unary_function, bool> @@ -287936,6 +287962,7 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 224 | public std::binary_function @@ -287949,6 +287976,15 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 97%] Built target mason_variator +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Building CXX object apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -MF CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d -o CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -288131,87 +288167,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:42: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 79 | struct FunctorUpcase : public std::unary_function - | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/string:49, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:44: -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 113 | struct FunctorLowcase : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 147 | struct FunctorConvert : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 219 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 228 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 237 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 246 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 255 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 264 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 276 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 287 | struct FunctorComplement : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -288225,13 +288180,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 393 | struct PosLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:107: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_skew3.h:65:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 65 | public std::binary_function @@ -288371,60 +288319,116 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:46, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:42: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 79 | struct FunctorUpcase : public std::unary_function + | ^~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/string:49, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/debug_test_system.h:150, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_debug.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:49, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/arg_parse.h:44: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 120 | struct RepeatLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:113:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 113 | struct FunctorLowcase : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:147:37: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 147 | struct FunctorConvert : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:219:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 219 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:228:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 228 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:237:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 237 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:246:45: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 246 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:255:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 255 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:264:46: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 264 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:276:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 276 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:287:47: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 287 | struct FunctorComplement : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:79: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_position.h:393:31: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 393 | struct PosLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 120 | struct RepeatLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -288451,45 +288455,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFastq_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList, TagList > > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -288512,13 +288477,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -288544,6 +288502,25 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:50, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/bam_sam.h:39, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:55: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = TagFasta_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -288569,30 +288546,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/vcf_materialization.h:44, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:49: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 45 | struct filterI1 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 54 | struct filterI2 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct filterI3 : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' @@ -288619,70 +288572,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 351 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 457 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 57 | public std::binary_function < - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 206 | struct insertBucket : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 321 | struct insertBucket : public std::unary_function { - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 373 | struct SetLess_ : public std::binary_function - | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 340 | struct FibreLess: public std::binary_function - | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 646 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 660 | struct FunctorGlobalize : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Raw_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: recursively required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList, TagList, TagList > > > >]' 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); @@ -288706,22 +288608,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 666 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 714 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 782 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_iterator.h:80, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:86, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:74: @@ -288756,9 +288642,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:586:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] 586 | return Iter >(container(left), hostIterator(left) + right); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:96: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) @@ -288800,27 +288683,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 851 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 116 | Iter(typename Parameter_::Type container_, TIterator it_) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 885 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 933 | public std::binary_function < TSAValue, TSAValue, bool > - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h: In instantiation of 'seqan::Iter > seqan::operator-(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:650:46: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' 650 | if (seqHIterBegin == end(seqH, Rooted()) - 1) @@ -288892,6 +288757,331 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' + 305 | TConstructor::construct(it, std::forward(param_)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' + 548 | valueConstruct(ret, data); + | ~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>]' + 650 | me.data_value = _holderAllocateObject(me, value_); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>]' + 594 | create(me, _dataValue(me)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>; typename Reference > >::Type = Segment, Alloc<> >, InfixSegment>&]' + 863 | create(me); + | ~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_array.h:269:34: required from 'void seqan::_reinitArrayGaps(Gaps >&) [with TSequence = Segment, Alloc<> >, InfixSegment>]' + 269 | _setLength(gaps, length(value(gaps._source))); + | ~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_array.h:155:25: required from 'seqan::Gaps >::Gaps(TSequence&) [with TSequence = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 155 | _reinitArrayGaps(*this); + | ~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:219:57: required from here + 219 | seqan::Gaps gapsContig(contigInfix); + | ^ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' + 392 | return _beginDefault(me, tag_); + | ~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:631:45: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' + 631 | TConstSeqHIterator seqHIterBegin = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, lowerDiagonal(band))); + | ~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' + 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 288 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&, const TGapModel&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; TGapModel = Tag; typename Value >::Type = int]' + 308 | return _setUpAndRunAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:176:44: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag; TAlgoTag = Tag]' + 176 | TScoreValue res = _setUpAndRunAlignment(trace, dpScoutState, source(gapsH), source(gapsV), scoringScheme, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 177 | TAlignConfig2(lowerDiag, upperDiag), TGapModel()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:211:31: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag]' + 211 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:228:39: required from here + 228 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, alignConfig, lDiag, uDiag); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 351 | return TIterator(me, begin(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:520:23: required from 'typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' + 520 | return _endDefault(me, tag_); + | ~~~~~~~~~~~^~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:650:29: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' + 650 | if (seqHIterBegin == end(seqH, Rooted()) - 1) + | ~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' + 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 288 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&, const TGapModel&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; TGapModel = Tag; typename Value >::Type = int]' + 308 | return _setUpAndRunAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:176:44: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag; TAlgoTag = Tag]' + 176 | TScoreValue res = _setUpAndRunAlignment(trace, dpScoutState, source(gapsH), source(gapsV), scoringScheme, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 177 | TAlignConfig2(lowerDiag, upperDiag), TGapModel()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:211:31: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag]' + 211 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:228:39: required from here + 228 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, alignConfig, lDiag, uDiag); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:486:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 486 | return TIterator(me, end(me, Standard())); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 116 | Iter(typename Parameter_::Type container_, TIterator it_) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' + 117 | : data_container(_toPointer(container_)), + | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:586:12: required from 'seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]' + 586 | return Iter >(container(left), hostIterator(left) + right); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:631:62: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' + 631 | TConstSeqHIterator seqHIterBegin = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, lowerDiagonal(band))); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' + 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1418 | dpProfile, TNavigationSpec{}); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' + 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 288 | TDPProfile()); + | ~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&, const TGapModel&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; TGapModel = Tag; typename Value >::Type = int]' + 308 | return _setUpAndRunAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:176:44: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag; TAlgoTag = Tag]' + 176 | TScoreValue res = _setUpAndRunAlignment(trace, dpScoutState, source(gapsH), source(gapsV), scoringScheme, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 177 | TAlignConfig2(lowerDiag, upperDiag), TGapModel()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:211:31: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag]' + 211 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:228:39: required from here + 228 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, alignConfig, lDiag, uDiag); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' + 143 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/methylation_levels.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/genomic_variants.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/vcf_materialization.h:44, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_splicing.cpp:49: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:45:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 45 | struct filterI1 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:54:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 54 | struct filterI2 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pipe_filter.h:63:35: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct filterI3 : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:74: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:351:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 351 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_mapper.h:457:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 457 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe.h:78: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:42:46: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 42 | struct MergeStreamComparer : public std::binary_function < PageBucket, + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:57:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 57 | public std::binary_function < + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:206:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 206 | struct insertBucket : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/pipe/pool_sorter.h:321:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 321 | struct insertBucket : public std::unary_function { + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:47: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/misc/set.h:373:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 373 | struct SetLess_ : public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:76: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:340:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 340 | struct FibreLess: public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:646:43: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 646 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_base.h:660:68: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 660 | struct FunctorGlobalize : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 666 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:714:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 714 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:782:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 782 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:851:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 851 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:885:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 885 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:933:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 933 | public std::binary_function < TSAValue, TSAValue, bool > + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -289056,160 +289246,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic.h:58: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' - 305 | TConstructor::construct(it, std::forward(param_)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:548:19: required from 'typename seqan::Value::Type* seqan::_holderAllocateObject(THolder&, const TValue&) [with THolder = Holder, Alloc<> >, InfixSegment>, Tag >; TValue = Segment, Alloc<> >, InfixSegment>; typename Value::Type = Segment, Alloc<> >, InfixSegment>]' - 548 | valueConstruct(ret, data); - | ~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:650:42: required from 'void seqan::create(Holder >&, TValue2&) [with TValue = Segment, Alloc<> >, InfixSegment>; TValue2 = Segment, Alloc<> >, InfixSegment>]' - 650 | me.data_value = _holderAllocateObject(me, value_); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:594:19: required from 'void seqan::create(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>]' - 594 | create(me, _dataValue(me)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/holder_tristate.h:863:15: required from 'typename seqan::Reference > >::Type seqan::value(Holder >&) [with TValue = Segment, Alloc<> >, InfixSegment>; typename Reference > >::Type = Segment, Alloc<> >, InfixSegment>&]' - 863 | create(me); - | ~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_array.h:269:34: required from 'void seqan::_reinitArrayGaps(Gaps >&) [with TSequence = Segment, Alloc<> >, InfixSegment>]' - 269 | _setLength(gaps, length(value(gaps._source))); - | ~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gaps_array.h:155:25: required from 'seqan::Gaps >::Gaps(TSequence&) [with TSequence = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 155 | _reinitArrayGaps(*this); - | ~~~~~~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:219:57: required from here - 219 | seqan::Gaps gapsContig(contigInfix); - | ^ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:254:9: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 254 | new( (void*) & value(it) ) TNonConstValue(std::forward(param_)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:94: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_beginDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:392:25: required from 'typename seqan::DisableIf::Type> >, typename seqan::Iterator >::Type>::Type seqan::begin(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename DisableIf::Type> >, typename Iterator >::Type>::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; typename RemoveReference::Type = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' - 392 | return _beginDefault(me, tag_); - | ~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:631:45: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' - 631 | TConstSeqHIterator seqHIterBegin = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, lowerDiagonal(band))); - | ~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' - 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 288 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&, const TGapModel&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; TGapModel = Tag; typename Value >::Type = int]' - 308 | return _setUpAndRunAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:176:44: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag; TAlgoTag = Tag]' - 176 | TScoreValue res = _setUpAndRunAlignment(trace, dpScoutState, source(gapsH), source(gapsV), scoringScheme, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 177 | TAlignConfig2(lowerDiag, upperDiag), TGapModel()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:211:31: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag]' - 211 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:228:39: required from here - 228 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, alignConfig, lDiag, uDiag); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:351:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 351 | return TIterator(me, begin(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h: In instantiation of 'typename seqan::Iterator >::Type seqan::_endDefault(const T&, Rooted) [with T = Segment, Alloc<> >, InfixSegment>; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >; Rooted = const Tag]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:520:23: required from 'typename seqan::Iterator >::Type seqan::end(const T&, Tag) [with T = Segment, Alloc<> >, InfixSegment>; TSpec = Rooted_; typename Iterator >::Type = Iter, Alloc<> >, InfixSegment>, AdaptorIterator*, Tag > >]' - 520 | return _endDefault(me, tag_); - | ~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:650:29: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' - 650 | if (seqHIterBegin == end(seqH, Rooted()) - 1) - | ~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' - 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 288 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&, const TGapModel&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; TGapModel = Tag; typename Value >::Type = int]' - 308 | return _setUpAndRunAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:176:44: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag; TAlgoTag = Tag]' - 176 | TScoreValue res = _setUpAndRunAlignment(trace, dpScoutState, source(gapsH), source(gapsV), scoringScheme, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 177 | TAlignConfig2(lowerDiag, upperDiag), TGapModel()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:211:31: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag]' - 211 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:228:39: required from here - 228 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, alignConfig, lDiag, uDiag); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/sequence_interface.h:486:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 486 | return TIterator(me, end(me, Standard())); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:116:48: note: initializing argument 1 of 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 116 | Iter(typename Parameter_::Type container_, TIterator it_) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = String, Alloc<> >; TSpec = InfixSegment; typename Pointer_ >::Type = Segment, Alloc<> >, InfixSegment>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:117:40: required from 'seqan::Iter >::Iter(typename seqan::Parameter_::Type, TIterator) [with TContainer = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TIterator = seqan::SimpleType*; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' - 117 | : data_container(_toPointer(container_)), - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/iterator_adaptor.h:586:12: required from 'seqan::Iter > seqan::operator+(const Iter >&, int) [with TContainer = Segment, Alloc<> >, InfixSegment>; TIterator = SimpleType*; TSpec = Tag]' - 586 | return Iter >(container(left), hostIterator(left) + right); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:631:62: required from 'void seqan::_computeAlignmentImpl(TDPScout&, TDPScoreMatrixNavigator&, TDPTraceMatrixNavigator&, const TSequenceH&, const TSequenceV&, const TScoringScheme&, const TBand&, const DPProfile_&, const NavigateColumnWiseBanded&) [with TDPScout = DPScout_ >, If > >, Terminator_<>, Tag > >; TDPScoreMatrixNavigator = DPMatrixNavigator_ >, Tag, String >, Alloc<> > >, Tag, Tag >; TDPTraceMatrixNavigator = DPMatrixNavigator_, String >, DPTraceMatrix, Tag > > >, Tag >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoringScheme = Score >; TBand = DPBandConfig >; TAlignmentAlgo = GlobalAlignment_ >; TGapCosts = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; NavigateColumnWiseBanded = Tag]' - 631 | TConstSeqHIterator seqHIterBegin = begin(seqH, Rooted()) + _max(0, _min(seqHlength - 1, lowerDiagonal(band))); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_algorithm_impl.h:1417:26: required from 'typename seqan::Value::Type seqan::_computeAlignment(DPContext&, TTraceTarget&, TScoutState&, const TSequenceH&, const TSequenceV&, const TScoreScheme&, const DPBandConfig&, const DPProfile_&) [with TDPScoreValue = DPCell_ >; TTraceValue = unsigned char; TScoreMatHost = String >, Alloc<> >; TTraceMatHost = String; TTraceTarget = String, Alloc<> >; TScoutState = DPScoutState_ >; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreScheme = Score >; TBandSwitch = Tag; TAlignmentAlgorithm = GlobalAlignment_ >; TGapScheme = Tag; TTraceFlag = TracebackOn, Tag > >; TExecPolicy = Tag; typename Value::Type = int]' - 1417 | _computeAlignmentImpl(dpScout, dpScoreMatrixNavigator, dpTraceMatrixNavigator, seqH, seqV, scoreScheme, band, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1418 | dpProfile, TNavigationSpec{}); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:287:29: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(DPContext, TTraceValue, TScoreMat, TTraceMat>&, String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&) [with TScoreValue = int; TGapSpec = Tag; TTraceValue = unsigned char; TScoreMat = String >, Alloc<> >; TTraceMat = String; TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; typename Value >::Type = int]' - 287 | return _computeAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig._band, - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 288 | TDPProfile()); - | ~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/dp_setup.h:308:33: required from 'typename seqan::Value >::Type seqan::_setUpAndRunAlignment(String&, DPScoutState_&, const TSequenceH&, const TSequenceV&, const Score&, const AlignConfig2&, const TGapModel&) [with TTraceSegment = TraceSegment_; TSpec = Alloc<>; TDPScoutStateSpec = Tag; TSequenceH = Segment, Alloc<> >, InfixSegment>; TSequenceV = String, Alloc<> >; TScoreValue2 = int; TScoreSpec = Tag; TDPType = GlobalAlignment_<>; TBand = DPBandConfig >; TFreeEndGaps = FreeEndGaps_; TTraceConfig = TracebackOn, Tag > >; TGapModel = Tag; typename Value >::Type = int]' - 308 | return _setUpAndRunAlignment(dpContext, traceSegments, dpScoutState, seqH, seqV, scoringScheme, alignConfig); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:176:44: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int, const TAlgoTag&) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag; TAlgoTag = Tag]' - 176 | TScoreValue res = _setUpAndRunAlignment(trace, dpScoutState, source(gapsH), source(gapsV), scoringScheme, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 177 | TAlignConfig2(lowerDiag, upperDiag), TGapModel()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/global_alignment_banded.h:211:31: required from 'TScoreValue seqan::globalAlignment(Gaps&, Gaps&, const Score&, const AlignConfig&, int, int) [with TSequenceH = Segment, Alloc<> >, InfixSegment>; TGapsSpecH = Tag; TSequenceV = String, Alloc<> >; TGapsSpecV = Tag; TScoreValue = int; TScoreSpec = Tag; bool TOP = true; bool LEFT = false; bool RIGHT = false; bool BOTTOM = true; TACSpec = Tag]' - 211 | return globalAlignment(gapsH, gapsV, scoringScheme, alignConfig, lowerDiag, upperDiag, NeedlemanWunsch()); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2/mason_simulator.cpp:228:39: required from here - 228 | editDistance = globalAlignment(gapsContig, gapsRead, sScheme, alignConfig, lDiag, uDiag); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>::Segment(const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' - 143 | operator = (Segment const & source) - | ^~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:188: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/repeat_base.h:120:38: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 120 | struct RepeatLess_ : public std::binary_function @@ -289924,17 +289960,6 @@ | ^~~~~~~~~~~~~~~ [ 97%] Linking CXX executable ../../bin/mason_simulator cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_simulator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_simulator.dir/link.d CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -o ../../bin/mason_simulator -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target mason_simulator -make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o -MF CMakeFiles/micro_razers.dir/micro_razers.cpp.o.d -o CMakeFiles/micro_razers.dir/micro_razers.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/micro_razers.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io.h:49: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': @@ -289962,6 +289987,17 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_simulator.dir/link.d CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -o ../../bin/mason_simulator -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Built target mason_simulator +make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o -MF CMakeFiles/micro_razers.dir/micro_razers.cpp.o.d -o CMakeFiles/micro_razers.dir/micro_razers.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/micro_razers.cpp /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -290516,6 +290552,19 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +[ 97%] Linking CXX executable ../../bin/mason_tests +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_tests.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_tests.dir/link.d CMakeFiles/mason_tests.dir/mason_tests.cpp.o -o ../../bin/mason_tests -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Built target mason_tests +make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 97%] Building CXX object apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -MF CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d -o CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_plot_thumbnails.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' @@ -291285,8 +291334,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_string.h:117:53: note: initializing argument 1 of 'seqan::ModifiedString::ModifiedString(typename seqan::Parameter_::Type) [with THost = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>; TSpec = seqan::Tag; typename seqan::Parameter_::Type = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>]' 117 | ModifiedString(typename Parameter_::Type host) : | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -[ 97%] Linking CXX executable ../../bin/mason_tests -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 && /usr/bin/cmake -E cmake_link_script CMakeFiles/mason_tests.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/basic_fundamental.h:82: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h: In instantiation of 'static void seqan::ValueConstructor_::construct(TIterator, TParam&&) [with TIterator = seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>*; TParam = const seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>&]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/array_construct_destruct.h:305:28: required from 'void seqan::valueConstruct(TIterator, TParam&&) [with TIterator = Segment, Alloc<> >, InfixSegment>*; TParam = const Segment, Alloc<> >, InfixSegment>&]' @@ -291326,19 +291373,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_infix.h:143:5: note: because 'seqan::Segment, seqan::Alloc<> >, seqan::InfixSegment>' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = seqan::String, seqan::Alloc<> >]' 143 | operator = (Segment const & source) | ^~~~~~~~ -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/mason_tests.dir/link.d CMakeFiles/mason_tests.dir/mason_tests.cpp.o -o ../../bin/mason_tests -lrt -lz -lbz2 libmason_sim.a -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target mason_tests -[ 97%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -MF CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d -o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/param_tabs.cpp -make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Building CXX object apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -MF CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d -o CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_plot_thumbnails.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -291725,19 +291759,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:992:51, - inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:1285:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, @@ -292234,6 +292255,19 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'bool seqan::parseGappedParams(RazerSOptions&, TFile&, ParamChooserOptions&) [with TFile = std::basic_fstream; TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:992:51, + inlined from 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]' at /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/../razers/paramChooser.h:1285:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'bool seqan::chooseParams(RazerSOptions&, ParamChooserOptions&) [with TSpec = RazerSSpec<>]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = String >]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] @@ -292255,6 +292289,259 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[ 97%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -MF CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d -o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/param_tabs.cpp +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, + inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, + inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ +In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', + inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] + 255 | throw BadLexicalCast(target, source); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here + 72 | BadLexicalCast(TTarget const & target, TSource const & source) : + | ^~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here + 253 | TTarget target; + | ^~~~~~ [ 97%] Linking CXX executable ../../bin/micro_razers cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers && /usr/bin/cmake -E cmake_link_script CMakeFiles/micro_razers.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/micro_razers.dir/link.d CMakeFiles/micro_razers.dir/micro_razers.cpp.o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -o ../../bin/micro_razers -lrt -lz -lbz2 @@ -292546,6 +292833,7 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:91: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:666:13: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 666 | public std::binary_function < TSAValue, TSAValue, bool > @@ -292583,6 +292871,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_qgram.h:1814:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 1814 | struct _qgramComp : public std::binary_function { | ^~~~~~~~~~~~~~~ @@ -292595,6 +292885,11 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -MF CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index.h:102: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/index/index_sa_qsort.h:46:21: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 46 | public std::binary_function < TSAValue, TSAValue, bool > @@ -292754,257 +293049,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short unsigned int; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short unsigned int; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short unsigned int; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = char*]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = char*]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, char*>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:151:30: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = char*]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:21, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = short int; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = short int; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const short int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = short int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = unsigned char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:627:13, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = signed char; TSource = String >]', - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:82:47, - inlined from 'bool seqan::AppendTagsSamToBamOneTagHelper_::operator()(Type) [with Type = signed char; TTarget = seqan::String >; TBuffer = seqan::String >&]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:77:10, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = signed char]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:620:16, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned char; TSubList = TagList]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = char; TSubList = TagList >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short unsigned int; TSubList = TagList > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = short int; TSubList = TagList > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = float; TSubList = TagList > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = unsigned int; TSubList = TagList > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'bool seqan::tagApply(TFunctor&, TagList) [with TFunctor = AppendTagsSamToBamOneTagHelper_ >, String >&>; TTag = int; TSubList = TagList > > > > > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/basic/fundamental_tags.h:629:20, - inlined from 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_sam_conversion.h:166:26: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::_appendTagsSamToBamOneTag(TTarget&, TForwardIter&, CharString&) [with TTarget = String >; TForwardIter = Iter >, AdaptorIterator > >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const signed char&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = signed char; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = unsigned int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:320:50: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const unsigned int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = unsigned int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ -In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', - inlined from 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/read_sam.h:363:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:255:9: warning: 'target' may be used uninitialized [-Wmaybe-uninitialized] - 255 | throw BadLexicalCast(target, source); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h: In function 'void seqan::readRecord(BamAlignmentRecord&, BamIOContext&, TForwardIter&, const Sam&) [with TForwardIter = Iter >, StreamIterator > >; TNameStore = StringSet > >; TNameStoreCache = NameStoreCache > > >; TStorageSpec = Dependent >]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:72:5: note: by argument 2 of type 'const int&' to 'seqan::BadLexicalCast::BadLexicalCast(const TTarget&, const TSource&) [with TTarget = int; TSource = seqan::String >]' declared here - 72 | BadLexicalCast(TTarget const & target, TSource const & source) : - | ^~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here - 253 | TTarget target; - | ^~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/score.h:43, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:45: @@ -293084,27 +293128,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 98%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -MF CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp -[ 98%] Linking CXX executable ../../bin/bam2roi -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam2roi.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/bam2roi.dir/link.d CMakeFiles/bam2roi.dir/bam2roi.cpp.o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -o ../../bin/bam2roi -lrt -lz -lbz2 -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target bam2roi -make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/depend -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build -make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 98%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o -MF CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o.d -o CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, @@ -293197,6 +293220,198 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io/roi_io_context.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io.h:54, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:43, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:48: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Roi_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:876:14: required from here + 876 | if (!open(roiFileIn, toCString(options.inputRoiFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:44: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' + 114 | if (guessFormatFromFilename(fname, TFormat())) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' + 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here + 699 | if (!open(bamFile, bamFilename)) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 150 | ModifiedString(typename Parameter_::Type host): + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' + 151 | _host(_toPointer(host)), tmp_value() + | ~~~~~~~~~~^~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Roi_]' + 159 | TLowcase lowcaseFileName(fileName); + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' + 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' + 739 | return _open(file, fileName, openMode, False()); + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:876:14: required from here + 876 | if (!open(roiFileIn, toCString(options.inputRoiFile))) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] + 443 | return me; + | ^~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' + 117 | operator = (Segment const & source) + | ^~~~~~~~ +[ 98%] Linking CXX executable ../../bin/bam2roi +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam2roi.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -rdynamic -Wl,--dependency-file=CMakeFiles/bam2roi.dir/link.d CMakeFiles/bam2roi.dir/bam2roi.cpp.o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -o ../../bin/bam2roi -lrt -lz -lbz2 +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Built target bam2roi +make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/depend +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build +make[4]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 98%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o -MF CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o.d -o CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:57, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:41, @@ -293323,48 +293538,6 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io/roi_io_context.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io.h:54, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:43, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:48: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib/pair_align_lib.h:44: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] @@ -293373,50 +293546,6 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fai_index.h:41, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:73: @@ -293464,51 +293593,6 @@ 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Roi_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:876:14: required from here - 876 | if (!open(roiFileIn, toCString(options.inputRoiFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:98, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:44: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:75: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -293564,54 +293648,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 151 | _host(_toPointer(host)), tmp_value() | ~~~~~~~~~~^~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Roi_]' - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/roi_feature_projection.cpp:876:14: required from here - 876 | if (!open(roiFileIn, toCString(options.inputRoiFile))) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h:443:12: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 443 | return me; - | ^~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' - 114 | if (guessFormatFromFilename(fname, TFormat())) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:120:35: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' - 120 | return guessFormatFromFilename(fname, static_cast::Base &>(format)); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:722:37: required from 'bool seqan::_open(FormattedFile&, const char*, int, TThrowExceptions) [with TFileFormat = Tag; TDirection = Tag; TSpec = void; TThrowExceptions = False]' - 722 | if (!guessFormatFromFilename(basename, file.format)) // read/write from/to a file (with extension) - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/formatted_file.h:739:17: required from 'bool seqan::open(FormattedFile&, const char*, int) [with TFileFormat = Tag; TDirection = Tag; TSpec = void]' - 739 | return _open(file, fileName, openMode, False()); - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bam_io/bam_index_bai.h:699:14: required from here - 699 | if (!open(bamFile, bamFilename)) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: warning: implicitly-declared 'constexpr seqan::Segment::Segment(const seqan::Segment&)' is deprecated [-Wdeprecated-copy] - 159 | TLowcase lowcaseFileName(fileName); - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' - 117 | operator = (Segment const & source) - | ^~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 150 | ModifiedString(typename Parameter_::Type host): - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence.h:95: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_base.h: In instantiation of 'typename seqan::Pointer_ >::Type seqan::_toPointer(Segment&) [with THost = const char*; TSpec = PrefixSegment; typename Pointer_ >::Type = Segment]': -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:151:25: required from 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' - 151 | _host(_toPointer(host)), tmp_value() - | ~~~~~~~~~~^~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:159:14: required from 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]' 159 | TLowcase lowcaseFileName(fileName); | ^~~~~~~~~~~~~~~ @@ -293633,9 +293669,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -[100%] Linking CXX static library libpair_align_lib.a -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -P CMakeFiles/pair_align_lib.dir/cmake_clean_target.cmake -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/pair_align_lib.dir/link.txt --verbose=1 In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:119: In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:113:43, @@ -293697,6 +293730,9 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[100%] Linking CXX static library libpair_align_lib.a +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -P CMakeFiles/pair_align_lib.dir/cmake_clean_target.cmake +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/pair_align_lib.dir/link.txt --verbose=1 In function 'TTarget seqan::lexicalCast(const TSource&) [with TTarget = int; TSource = String >]', inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:113:43, inlined from 'void seqan::_readBedRecordNoData(BedRecord >&, TForwardIter&, CharString&) [with TForwardIter = Iter >, StreamIterator > >]' at /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io/read_bed.h:135:25, @@ -293737,19 +293773,20 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/lexical_cast.h:253:13: note: 'target' declared here 253 | TTarget target; | ^~~~~~ +[100%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.cpp /usr/bin/ar qc libpair_align_lib.a CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o /usr/bin/ranlib libpair_align_lib.a make[4]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [100%] Built target pair_align_lib -[100%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.cpp [100%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_DISABLE_VERSION_CHECK -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -I/build/reproducible-path/seqan2-2.4.0+dfsg/include -g -O2 -fdebug-prefix-map=/build/reproducible-path/seqan2-2.4.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DNDEBUG -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -W -Wall -pedantic -fopenmp -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -MD -MT apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -MF CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o.d -o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -c /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.cpp In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.h:51, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.cpp:36: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:42, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.cpp:36: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -293759,7 +293796,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.h:48: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:38: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -293839,10 +293876,9 @@ | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier.h:74, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:62, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/bed_io.h:45, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:42, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.cpp:36: + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:45, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.h:51, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.cpp:36: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_functors.h:79:36: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 79 | struct FunctorUpcase : public std::unary_function | ^~~~~~~~~~~~~~ @@ -293852,7 +293888,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:38: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.h:48: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -293923,13 +293959,20 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 1338 | struct testIODone : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io/roi_io_context.h:40, from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io.h:54, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.h:52: + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:43: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 325 | public std::unary_function, bool> | ^~~~~~~~~~~~~~ @@ -293943,10 +293986,44 @@ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file.h:92: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/file/string_external.h:1338:41: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 1338 | struct testIODone : public std::unary_function - | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 224 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 234 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 221 | struct QualityExtractor : public std::unary_function + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io/roi_io_context.h:40, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io.h:54, + from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_spliced.h:52: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 325 | public std::unary_function, bool> + | ^~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here + 117 | struct unary_function + | ^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] + 63 | struct LessPairI1_ : public std::unary_function, bool> + | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -294015,8 +294092,51 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:47: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 352 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 362 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 372 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 382 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 392 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 402 | public std::binary_function + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: +/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] + 2155 | public std::binary_function< + | ^~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here + 131 | struct binary_function + | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -294042,26 +294162,6 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/modifier/modifier_view.h:150:53: note: initializing argument 1 of 'seqan::ModifiedString >::ModifiedString(typename seqan::Parameter_::Type) [with THost = const seqan::Segment; TFunctor = seqan::FunctorLowcase; typename seqan::Parameter_::Type = seqan::Segment]' 150 | ModifiedString(typename Parameter_::Type host): | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_align.h:48, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:59, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:38, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io/roi_io_context.h:40, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/roi_io.h:54, - from /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/project_interval.h:43: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/graph_algorithm_heap_tree.h:325:17: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 325 | public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/graph_algorithms/kruskal.h:63:34: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 63 | struct LessPairI1_ : public std::unary_function, bool> - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Sam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -294113,72 +294213,8 @@ /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/sequence/segment_prefix.h:117:5: note: because 'seqan::Segment' has user-provided 'seqan::Segment& seqan::Segment::operator=(const seqan::Segment&) [with THost_ = const char*]' 117 | operator = (Segment const & source) | ^~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align.h:88: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:224:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 224 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/align/gap_anchor.h:234:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 234 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io.h:52, - from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:41: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/seq_io/fasta_fastq.h:221:39: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] - 221 | struct QualityExtractor : public std::unary_function - | ^~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here - 117 | struct unary_function - | ^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:60: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:352:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 352 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:362:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 362 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:372:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 372 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:382:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 382 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:392:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 392 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_align.h:402:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 402 | public std::binary_function - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store.h:62: -/build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/store/store_all.h:2155:17: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] - 2155 | public std::binary_function< - | ^~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here - 131 | struct binary_function - | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75: +In file included from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream.h:75, + from /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/gff_io.h:47: /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h: In instantiation of 'bool seqan::guessFormatFromFilename(const TFilename&, Tag) [with TFilename = Segment; TFormat_ = Bam_]': /build/reproducible-path/seqan2-2.4.0+dfsg/include/seqan/stream/guess_format.h:114:36: required from 'bool seqan::guessFormatFromFilename(const TFilename&, TagSelector&) [with TFilename = Segment; TTagList = TagList, TagList > >]' 114 | if (guessFormatFromFilename(fname, TFormat())) @@ -294540,7 +294576,7 @@ # cd manual && make html make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_auto_build -Nseqan-apps - cd obj-x86_64-linux-gnu && make -j40 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/seqan2-2.4.0+dfsg -B/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -294550,287 +294586,167 @@ make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/depend make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/depend make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles/seqan_library.dir/DependInfo.cmake "--color=" make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles/seqan_library.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/DependInfo.cmake "--color=" -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/compiler_depend.internal". -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/compiler_depend.internal". make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/build -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'CMakeFiles/seqan_library.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/compiler_depend.internal". Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/compiler_depend.internal". Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/compiler_depend.internal". Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/compiler_depend.internal". Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -[ 0%] Built target seqan_library +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/compiler_depend.internal". Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +[ 0%] Built target seqan_library +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/compiler_depend.internal". make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/depend make -f tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/depend make -f tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/depend -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". make -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/DependInfo.cmake "--color=" make -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/depend make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/depend make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/depend -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/depend -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/depend -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/DependInfo.cmake "--color=" -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/depend +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/DependInfo.cmake "--color=" -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/depend -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/depend -Dependencies file "apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_sim.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/DependInfo.cmake "--color=" +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/depend +Consolidate compiler generated dependencies of target pair_align_global_0010 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/DependInfo.cmake "--color=" -make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/DependInfo.cmake "--color=" -make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/DependInfo.cmake "--color=" -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/DependInfo.cmake "--color=" -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/DependInfo.cmake "--color=" -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/depend -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/DependInfo.cmake "--color=" -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align/CMakeFiles/test_align.dir/test_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_extend/CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/test_align_parallel_data_structures.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/compiler_depend.internal". -Dependencies file "tests/align_extend/CMakeFiles/test_align_extend.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/compiler_depend.internal". -Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target pair_align_global_1000 -Consolidate compiler generated dependencies of target pair_align_global_0101 -Consolidate compiler generated dependencies of target pair_align_global_1010 -Consolidate compiler generated dependencies of target pair_align_global_1111 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target pair_align_global_1011 -Consolidate compiler generated dependencies of target pair_align_global_0110 -Consolidate compiler generated dependencies of target pair_align_global_0000 +Consolidate compiler generated dependencies of target pair_align_global_1111 Consolidate compiler generated dependencies of target pair_align_global_0100 -Consolidate compiler generated dependencies of target pair_align_local -Consolidate compiler generated dependencies of target pair_align_global_1001 -Consolidate compiler generated dependencies of target pair_align_lcs -Consolidate compiler generated dependencies of target pair_align_global_0011 Consolidate compiler generated dependencies of target pair_align_global_1100 -Consolidate compiler generated dependencies of target pair_align_global_0111 -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_avx2 -Consolidate compiler generated dependencies of target pair_align_global_1110 -Consolidate compiler generated dependencies of target pair_align_global_0010 +Consolidate compiler generated dependencies of target pair_align_global_0000 +Consolidate compiler generated dependencies of target pair_align_global_1010 +Consolidate compiler generated dependencies of target pair_align_global_0110 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target pair_align_global_0001 -Consolidate compiler generated dependencies of target pair_align_global_1101 -Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_sse4 -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length -Consolidate compiler generated dependencies of target test_align -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target pair_align_global_0011 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target pair_align_lcs make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/DependInfo.cmake "--color=" +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build +Consolidate compiler generated dependencies of target pair_align_local make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build +Consolidate compiler generated dependencies of target pair_align_global_1101 make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build -make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build -make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/build -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build'. @@ -294839,4829 +294755,4921 @@ make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build'. make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/align/CMakeFiles/test_align.dir/test_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target pair_align_global_0101 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target pair_align_global_0111 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/test_align_simd_global_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/compiler_depend.internal". +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build +Consolidate compiler generated dependencies of target pair_align_global_1000 +Consolidate compiler generated dependencies of target pair_align_global_1110 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build'. +Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_sse4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 0%] Built target pair_align_global_1011 -[ 0%] Built target pair_align_global_1000 -Consolidate compiler generated dependencies of target test_align_parallel_algorithm_sse4 +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_align_simd_local_equal_length -Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_sse4 -Consolidate compiler generated dependencies of target test_align_parallel_interface -Consolidate compiler generated dependencies of target test_align_parallel_algorithm_avx2 -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length_sse4 -Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_avx2 -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length -Consolidate compiler generated dependencies of target test_align_simd_global_equal_length_avx2 -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_sse4 -Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_avx2 -Consolidate compiler generated dependencies of target test_align_parallel_algorithm -Consolidate compiler generated dependencies of target test_align_parallel_data_structures -Consolidate compiler generated dependencies of target test_align_extend -[ 0%] Built target pair_align_lcs -[ 0%] Built target pair_align_local -[ 0%] Built target pair_align_global_0000 -[ 0%] Built target pair_align_global_0001 -[ 0%] Built target pair_align_global_0101 -[ 0%] Built target pair_align_global_0011 -[ 1%] Built target pair_align_global_0110 -make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/depend -Consolidate compiler generated dependencies of target test_align_parallel_interface_avx2 -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_1100 -[ 1%] Built target pair_align_global_1001 -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build +Consolidate compiler generated dependencies of target pair_align_global_1001 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_align_parallel_interface_sse4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend +[ 0%] Built target pair_align_global_1111 +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/depend +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build'. +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_1111 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/DependInfo.cmake "--color=" +[ 0%] Built target pair_align_global_0000 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build +Consolidate compiler generated dependencies of target test_align_simd_local_variable_length +Consolidate compiler generated dependencies of target test_align_simd_global_equal_length +Consolidate compiler generated dependencies of target test_align_simd_global_equal_length_avx2 +Consolidate compiler generated dependencies of target test_align_simd_global_equal_length_sse4 Consolidate compiler generated dependencies of target mason_sim -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_align_simd_global_variable_length +[ 0%] Built target pair_align_global_0001 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 0%] Built target pair_align_local +Consolidate compiler generated dependencies of target test_align +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build make -f tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/DependInfo.cmake "--color=" +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build -make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build -[ 1%] Built target pair_align_global_0010 -make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target pair_align_global_0111 -make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build -[ 1%] Built target pair_align_global_0100 -make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build -[ 1%] Built target test_align -make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/build -[ 1%] Built target pair_align_global_1110 -make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build -[ 1%] Built target test_align_simd_global_equal_length -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build -[ 1%] Built target test_align_simd_local_equal_length_sse4 -[ 1%] Built target pair_align_global_1101 -make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build -[ 1%] Built target test_align_simd_local_variable_length make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build'. +[ 0%] Built target pair_align_global_0010 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 0%] Built target pair_align_global_0100 +make -f tests/align/CMakeFiles/test_align.dir/build.make tests/align/CMakeFiles/test_align.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 0%] Built target pair_align_global_0011 +[ 0%] Built target pair_align_lcs +make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build +make -f tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build'. +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build -make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build +[ 1%] Built target pair_align_global_0110 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 1%] Built target pair_align_global_1010 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build'. +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target test_align_simd_local_variable_length_avx2 -[ 1%] Built target pair_align_global_1010 +[ 1%] Built target pair_align_global_1011 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build'. -make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/depend +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend -make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/depend +[ 1%] Built target pair_align_global_1100 +[ 1%] Built target pair_align_global_1101 +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/depend +[ 1%] Built target pair_align_global_0111 +[ 1%] Built target test_align_simd_local_equal_length +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/depend +[ 2%] Built target test_align_simd_global_variable_length_sse4 +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/depend +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/test_align_simd_global_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/DependInfo.cmake "--color=" -make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/depend +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/compiler_depend.internal". +make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_equal_length_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_sse4.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/DependInfo.cmake "--color=" +make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/depend +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/compiler_depend.internal". +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/depend +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/DependInfo.cmake "--color=" +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/DependInfo.cmake "--color=" +[ 2%] Built target pair_align_global_1000 +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/DependInfo.cmake "--color=" +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/depend +[ 2%] Built target test_align_simd_global_equal_length_avx2 +[ 2%] Built target pair_align_global_0101 +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/depend +[ 2%] Built target pair_align_global_1001 +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/depend +[ 2%] Built target test_align +[ 2%] Built target test_align_simd_global_equal_length make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_sim.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 2%] Built target test_align_simd_local_variable_length make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/DependInfo.cmake "--color=" +[ 2%] Built target test_align_simd_global_variable_length +make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/depend +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/depend +make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/compiler_depend.internal". +make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/depend +[ 2%] Built target pair_align_global_1110 +[ 2%] Built target test_align_simd_global_equal_length_sse4 +make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/depend +make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/depend +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/test_align_simd_local_equal_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/depend +make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/depend +make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_extend/CMakeFiles/test_align_extend.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/test_align_simd_local_variable_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/compiler_depend.internal". +Dependencies file "tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/compiler_depend.internal". +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/test_align_parallel_data_structures.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align_extend/CMakeFiles/test_align_extend.dir/test_align_extend.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/compiler_depend.internal". make -f tests/basic/CMakeFiles/test_basic_concept.dir/build.make tests/basic/CMakeFiles/test_basic_concept.dir/depend -Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". +Dependencies file "tests/align_extend/CMakeFiles/test_align_extend.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_extend/CMakeFiles/test_align_extend.dir/compiler_depend.internal". make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/compiler_depend.internal". make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/depend +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/compiler_depend.internal". make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/depend -Dependencies file "tests/alignment_free/CMakeFiles/test_alignment_free.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/DependInfo.cmake "--color=" -make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/depend -Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". -make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/DependInfo.cmake "--color=" -Dependencies file "tests/align_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/compiler_depend.internal". +[ 3%] Built target mason_sim +make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_aggregate.dir/DependInfo.cmake "--color=" -make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/depend -make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/depend +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/compiler_depend.internal". +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/DependInfo.cmake "--color=" +make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/depend +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/compiler_depend.internal". +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/test_align_parallel_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_sse4 +Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_sse4 +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/compiler_depend.internal". +Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_align_simd_local_variable_length_avx2 +Consolidate compiler generated dependencies of target test_align_simd_local_equal_length_avx2 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_align_extend +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/compiler_depend.internal". +Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/DependInfo.cmake "--color=" -make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/depend +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_align_simd_global_variable_length_avx2 +Consolidate compiler generated dependencies of target test_align_parallel_data_structures +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build +Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build +make -f tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build.make tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build +Dependencies file "tests/align_profile/CMakeFiles/test_align_profile.dir/test_align_profile.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/compiler_depend.internal". +make -f tests/align_extend/CMakeFiles/test_align_extend.dir/build.make tests/align_extend/CMakeFiles/test_align_extend.dir/build +Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". +Dependencies file "tests/bam_io/CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/compiler_depend.internal". +Dependencies file "tests/bam_io/CMakeFiles/test_bam_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/compiler_depend.internal". +make -f tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build Dependencies file "tests/align_profile/CMakeFiles/test_align_profile.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_profile/CMakeFiles/test_align_profile.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/test_align_split.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/depend +make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/depend +Dependencies file "tests/align_split/CMakeFiles/test_align_split.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_split/CMakeFiles/test_align_split.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/depend make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/depend -[ 1%] Built target test_align_simd_local_equal_length_avx2 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target test_align_simd_local_equal_length -[ 1%] Built target test_align_simd_global_variable_length -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/DependInfo.cmake "--color=" make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/depend make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/depend -[ 1%] Built target test_align_simd_global_variable_length_avx2 make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_sse4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/DependInfo.cmake "--color=" -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_sim.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 1%] Built target test_align_simd_global_equal_length_avx2 -make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/depend -Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse.dir/test_arg_parse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/DependInfo.cmake "--color=" -[ 1%] Built target test_align_simd_global_equal_length_sse4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/DependInfo.cmake "--color=" -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/DependInfo.cmake "--color=" -Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse.dir/compiler_depend.internal". -[ 2%] Built target test_align_simd_global_variable_length_sse4 -make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/test_basic_metaprogramming.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/DependInfo.cmake "--color=" -make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/depend -Dependencies file "tests/basic/CMakeFiles/test_basic_metaprogramming.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_metaprogramming.dir/compiler_depend.internal". -Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/compiler_depend.internal". -make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/depend -make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/depend -make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/depend -make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/depend -Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/compiler_depend.internal". -[ 3%] Built target test_align_simd_local_variable_length_sse4 -Dependencies file "tests/bam_io/CMakeFiles/test_bam_io.dir/test_bam_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_global_variable_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/DependInfo.cmake "--color=" -[ 3%] Built target test_align_parallel_interface +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_equal_length_avx2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/test_arg_parse_version_check.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/DependInfo.cmake "--color=" -[ 3%] Built target test_align_parallel_algorithm_sse4 -Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". -[ 3%] Built target test_align_parallel_interface_sse4 -[ 3%] Built target test_align_parallel_data_structures -Dependencies file "tests/basic/CMakeFiles/test_basic_fundamental.dir/test_basic_fundamental.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/compiler_depend.internal". -make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/depend -Dependencies file "tests/bam_io/CMakeFiles/test_bam_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bam_io/CMakeFiles/test_bam_io.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/DependInfo.cmake "--color=" Dependencies file "tests/basic/CMakeFiles/test_basic_fundamental.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_fundamental.dir/compiler_depend.internal". -[ 3%] Built target test_align_extend -Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". -make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/DependInfo.cmake "--color=" -make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/depend -[ 4%] Built target test_align_parallel_algorithm -make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/depend -[ 4%] Built target test_align_parallel_interface_avx2 -[ 4%] Built target test_align_parallel_algorithm_avx2 -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/DependInfo.cmake "--color=" +Dependencies file "tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/compiler_depend.internal". +make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/depend +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/align_extend/CMakeFiles/test_align_extend.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/DependInfo.cmake "--color=" -Dependencies file "tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/align/CMakeFiles/test_align_simd_local_variable_length_sse4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/depend -Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_data_structures.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/DependInfo.cmake "--color=" -Dependencies file "tests/basic/CMakeFiles/test_basic_alphabet.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/DependInfo.cmake "--color=" Dependencies file "tests/basic/CMakeFiles/test_basic_aggregate.dir/test_basic_aggregate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_aggregate.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/depend -Dependencies file "tests/basic/CMakeFiles/test_basic_parallelism.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/DependInfo.cmake "--color=" -Dependencies file "tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_math.dir/test_basic_math.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/DependInfo.cmake "--color=" -Dependencies file "tests/basic/CMakeFiles/test_basic_aggregate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_aggregate.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_math.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/DependInfo.cmake "--color=" -Dependencies file "tests/basic/CMakeFiles/test_basic_allocator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_concept.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/compiler_depend.internal". -Dependencies file "tests/blast/CMakeFiles/test_blast.dir/test_blast.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/compiler_depend.internal". -Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/test_consensus.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_container.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/compiler_depend.internal". -Dependencies file "tests/bed_io/CMakeFiles/test_bed_io.dir/test_bed_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/compiler_depend.internal". -Dependencies file "tests/blast/CMakeFiles/test_blast.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/compiler_depend.internal". -Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/compiler_depend.internal". -Dependencies file "tests/bed_io/CMakeFiles/test_bed_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/compiler_depend.internal". -[ 5%] Built target mason_sim -Dependencies file "tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/compiler_depend.internal". -Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/test_consensus_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". -Dependencies file "tests/basic/CMakeFiles/test_basic_proxy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/compiler_depend.internal". -Dependencies file "tests/gff_io/CMakeFiles/test_gff_io.dir/test_gff_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/compiler_depend.internal". -Dependencies file "tests/find/CMakeFiles/test_find.dir/test_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". -Dependencies file "tests/gff_io/CMakeFiles/test_gff_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/depend -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". -Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". -Dependencies file "tests/find/CMakeFiles/test_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/DependInfo.cmake "--color=" -Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/test_graph_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". -Dependencies file "tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/test_graph_algorithms.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/compiler_depend.internal". -Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". -Dependencies file "tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/compiler_depend.internal". -Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/test_index_crosscompare_dna_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". -Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/test_index_qgram.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/test_index_crosscompare_char_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_graph_types_iterators -Consolidate compiler generated dependencies of target test_graph_types_types -Consolidate compiler generated dependencies of target test_blast -Consolidate compiler generated dependencies of target test_bed_io -Consolidate compiler generated dependencies of target test_consensus -Consolidate compiler generated dependencies of target test_basic_math -Consolidate compiler generated dependencies of target test_basic_proxy -Consolidate compiler generated dependencies of target test_basic_metaprogramming -Consolidate compiler generated dependencies of target test_align_split -Consolidate compiler generated dependencies of target test_gff_io -Consolidate compiler generated dependencies of target test_basic_allocator -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_basic_iterator -Consolidate compiler generated dependencies of target test_basic_aggregate -Consolidate compiler generated dependencies of target test_basic_container -Consolidate compiler generated dependencies of target test_basic_concept Consolidate compiler generated dependencies of target test_arg_parse_version_check +Consolidate compiler generated dependencies of target test_align_parallel_interface_avx2 +Consolidate compiler generated dependencies of target test_align_parallel_interface_sse4 Consolidate compiler generated dependencies of target test_align_profile -Consolidate compiler generated dependencies of target test_arg_parse -Consolidate compiler generated dependencies of target test_alignment_free -Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/test_index_creation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_bam_io -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_graph_types_property_map -Consolidate compiler generated dependencies of target test_find -Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_basic_fundamental -Consolidate compiler generated dependencies of target test_basic_alphabet -Consolidate compiler generated dependencies of target test_basic_exception -Consolidate compiler generated dependencies of target test_basic_parallelism -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/build -Consolidate compiler generated dependencies of target test_graph_algorithms -Consolidate compiler generated dependencies of target test_consensus_v2 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/basic/CMakeFiles/test_basic_aggregate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_aggregate.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_align_parallel_algorithm +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/DependInfo.cmake "--color=" +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/test_align_parallel_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/compiler_depend.internal". +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build +Consolidate compiler generated dependencies of target test_basic_fundamental +Consolidate compiler generated dependencies of target test_align_split +Consolidate compiler generated dependencies of target test_bam_io +Consolidate compiler generated dependencies of target test_align_parallel_algorithm_avx2 +make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_graph_types_derived make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_align_parallel_interface make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/basic/CMakeFiles/test_basic_parallelism.dir/test_basic_parallelism.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/compiler_depend.internal". +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build +Dependencies file "tests/basic/CMakeFiles/test_basic_allocator.dir/test_basic_allocator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_arg_parse +Dependencies file "tests/basic/CMakeFiles/test_basic_parallelism.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_parallelism.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_allocator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_allocator.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_basic_metaprogramming +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_basic_smart_pointer +Dependencies file "tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/compiler_depend.internal". +Dependencies file "tests/alignment_free/CMakeFiles/test_alignment_free.dir/test_alignment_free.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build +Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/test_basic_exception.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_alphabet.dir/test_basic_alphabet.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_concept.dir/test_basic_concept.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_exception.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_exception.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_alphabet.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_alphabet.dir/compiler_depend.internal". +Dependencies file "tests/alignment_free/CMakeFiles/test_alignment_free.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/alignment_free/CMakeFiles/test_alignment_free.dir/compiler_depend.internal". +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build +Dependencies file "tests/basic/CMakeFiles/test_basic_math.dir/test_basic_math.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_math.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_math.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_avx2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/basic/CMakeFiles/test_basic_concept.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_concept.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align_profile/CMakeFiles/test_align_profile.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/test_basic_smart_pointer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". +make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build +[ 3%] Built target test_align_simd_local_equal_length_sse4 +Dependencies file "tests/basic/CMakeFiles/test_basic_smart_pointer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_smart_pointer.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_profile/CMakeFiles/test_align_profile.dir/build.make tests/align_profile/CMakeFiles/test_align_profile.dir/build +Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/test_consensus.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/compiler_depend.internal". +make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/build +Dependencies file "tests/consensus/CMakeFiles/test_consensus.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus/CMakeFiles/test_consensus.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 3%] Built target test_align_simd_local_variable_length_avx2 +make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build +make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_avx2.dir/build'. +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_interface.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". +[ 3%] Built target test_align_simd_global_variable_length_avx2 +[ 3%] Built target test_align_simd_local_equal_length_avx2 +Dependencies file "tests/basic/CMakeFiles/test_basic_proxy.dir/test_basic_proxy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/compiler_depend.internal". +Dependencies file "tests/bed_io/CMakeFiles/test_bed_io.dir/test_bed_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build +Dependencies file "tests/basic/CMakeFiles/test_basic_proxy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_proxy.dir/compiler_depend.internal". +Dependencies file "tests/bed_io/CMakeFiles/test_bed_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io/CMakeFiles/test_bed_io.dir/compiler_depend.internal". +make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/build +[ 4%] Built target test_align_simd_local_variable_length_sse4 +Dependencies file "tests/basic/CMakeFiles/test_basic_iterator.dir/test_basic_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/compiler_depend.internal". +Dependencies file "tests/blast/CMakeFiles/test_blast.dir/test_blast.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_container.dir/test_basic_container.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/compiler_depend.internal". +Dependencies file "tests/find/CMakeFiles/test_find.dir/test_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/blast/CMakeFiles/test_blast.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast/CMakeFiles/test_blast.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/align_split/CMakeFiles/test_align_split.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_graph_msa -Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". +Dependencies file "tests/find/CMakeFiles/test_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/find/CMakeFiles/test_find.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/align_split/CMakeFiles/test_align_split.dir/build.make tests/align_split/CMakeFiles/test_align_split.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_basic_parallelism +Consolidate compiler generated dependencies of target test_basic_aggregate +Consolidate compiler generated dependencies of target test_basic_concept +Dependencies file "tests/basic/CMakeFiles/test_basic_container.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_container.dir/compiler_depend.internal". +Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/test_consensus_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". +Dependencies file "tests/basic/CMakeFiles/test_basic_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic/CMakeFiles/test_basic_iterator.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_alignment_free +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_fundamental.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_crosscompare_char -Consolidate compiler generated dependencies of target test_graph_align -Consolidate compiler generated dependencies of target test_index_crosscompare_char_dfi +Consolidate compiler generated dependencies of target test_basic_math +Consolidate compiler generated dependencies of target test_basic_allocator +make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/build +Consolidate compiler generated dependencies of target test_basic_proxy +Consolidate compiler generated dependencies of target test_basic_alphabet +Consolidate compiler generated dependencies of target test_basic_exception +make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/bam_io/CMakeFiles/test_bam_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_consensus +Dependencies file "tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_creation -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_graph_types_utils -Consolidate compiler generated dependencies of target test_index_crosscompare_dna_dfi -Consolidate compiler generated dependencies of target test_index_crosscompare_dna -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/blast/CMakeFiles/test_blast.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_align_parallel_algorithm_sse4 +make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_qgram make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_basic_smart_pointer make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_profile/CMakeFiles/test_align_profile.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_parallelism.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build.make tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build +make -f tests/alignment_free/CMakeFiles/test_alignment_free.dir/build.make tests/alignment_free/CMakeFiles/test_alignment_free.dir/build +[ 4%] Built target test_align_extend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_aggregate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/arg_parse/CMakeFiles/test_arg_parse.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/align_split/CMakeFiles/test_align_split.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_alphabet.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build.make tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". -make -f tests/bam_io/CMakeFiles/test_bam_io.dir/build.make tests/bam_io/CMakeFiles/test_bam_io.dir/build make -f tests/basic/CMakeFiles/test_basic_exception.dir/build.make tests/basic/CMakeFiles/test_basic_exception.dir/build -make -f tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build.make tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build -make -f tests/basic/CMakeFiles/test_basic_fundamental.dir/build.make tests/basic/CMakeFiles/test_basic_fundamental.dir/build -Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". make -f tests/basic/CMakeFiles/test_basic_concept.dir/build.make tests/basic/CMakeFiles/test_basic_concept.dir/build -make -f tests/basic/CMakeFiles/test_basic_alphabet.dir/build.make tests/basic/CMakeFiles/test_basic_alphabet.dir/build -make -f tests/basic/CMakeFiles/test_basic_aggregate.dir/build.make tests/basic/CMakeFiles/test_basic_aggregate.dir/build make -f tests/basic/CMakeFiles/test_basic_allocator.dir/build.make tests/basic/CMakeFiles/test_basic_allocator.dir/build -make -f tests/basic/CMakeFiles/test_basic_parallelism.dir/build.make tests/basic/CMakeFiles/test_basic_parallelism.dir/build make -f tests/basic/CMakeFiles/test_basic_math.dir/build.make tests/basic/CMakeFiles/test_basic_math.dir/build -make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_metaprogramming.dir/build'. +make[3]: Nothing to be done for 'tests/align_parallel/CMakeFiles/test_align_parallel_algorithm_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build.make tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/alignment_free/CMakeFiles/test_alignment_free.dir/build'. -make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/build +make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_allocator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/build +[ 4%] Built target test_align_parallel_data_structures make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_exception.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/arg_parse/CMakeFiles/test_arg_parse_version_check.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_concept.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_fundamental.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_math.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_alphabet.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_proxy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/basic/CMakeFiles/test_basic_proxy.dir/build.make tests/basic/CMakeFiles/test_basic_proxy.dir/build -make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/build +[ 5%] Built target test_align_profile make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_concept.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/build -make -f tests/consensus/CMakeFiles/test_consensus.dir/build.make tests/consensus/CMakeFiles/test_consensus.dir/build +[ 5%] Built target test_align_parallel_interface_avx2 +[ 6%] Built target test_align_parallel_algorithm make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_parallelism.dir/build'. +make[3]: Nothing to be done for 'tests/consensus/CMakeFiles/test_consensus.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build -make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_math.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_allocator.dir/build'. +Consolidate compiler generated dependencies of target test_consensus_v2 +Consolidate compiler generated dependencies of target test_find +Consolidate compiler generated dependencies of target test_bed_io +Consolidate compiler generated dependencies of target test_basic_container make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/bam_io/CMakeFiles/test_bam_io.dir/build'. +make -f tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build.make tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build +[ 6%] Built target test_align_parallel_interface make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_aggregate.dir/build'. +Consolidate compiler generated dependencies of target test_basic_iterator +Consolidate compiler generated dependencies of target test_blast make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build -make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/build -Consolidate compiler generated dependencies of target test_index_sa_bwtwalk -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_smart_pointer.dir/build'. +[ 6%] Built target test_align_parallel_interface_sse4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/build +make -f tests/basic/CMakeFiles/test_basic_container.dir/build.make tests/basic/CMakeFiles/test_basic_container.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/basic/CMakeFiles/test_basic_iterator.dir/build.make tests/basic/CMakeFiles/test_basic_iterator.dir/build +make -f tests/bed_io/CMakeFiles/test_bed_io.dir/build.make tests/bed_io/CMakeFiles/test_bed_io.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_container.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/blast/CMakeFiles/test_blast.dir/build.make tests/blast/CMakeFiles/test_blast.dir/build +[ 6%] Built target test_arg_parse_version_check +[ 6%] Built target test_align_parallel_algorithm_avx2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_proxy.dir/build'. +make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_iterator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build -make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build +make -f tests/find/CMakeFiles/test_find.dir/build.make tests/find/CMakeFiles/test_find.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/basic/CMakeFiles/test_basic_iterator.dir/build'. +make[3]: Nothing to be done for 'tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/build -make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/blast/CMakeFiles/test_blast.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/build -make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build -make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build -make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build +[ 7%] Built target test_basic_aggregate +[ 7%] Built target test_align_split make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/bed_io/CMakeFiles/test_bed_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/gff_io/CMakeFiles/test_gff_io.dir/build'. +make[3]: Nothing to be done for 'tests/find/CMakeFiles/test_find.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/build +[ 7%] Built target test_basic_metaprogramming +[ 7%] Built target test_bam_io +[ 7%] Built target test_arg_parse +[ 7%] Built target test_basic_alphabet +[ 7%] Built target test_basic_fundamental +[ 7%] Built target test_basic_parallelism +make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/depend +make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/depend +make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/DependInfo.cmake "--color=" +make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/depend +make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/DependInfo.cmake "--color=" +[ 7%] Built target test_basic_allocator +[ 7%] Built target test_alignment_free +[ 7%] Built target test_basic_concept +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/DependInfo.cmake "--color=" +[ 7%] Built target test_basic_container +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/DependInfo.cmake "--color=" +make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/DependInfo.cmake "--color=" +make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/depend +make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/depend +[ 7%] Built target test_basic_math +[ 7%] Built target test_consensus +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 7%] Built target test_basic_exception +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/DependInfo.cmake "--color=" +[ 8%] Built target test_basic_smart_pointer +make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/depend +[ 8%] Built target test_consensus_v2 +make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/depend +[ 9%] Built target test_find +[ 9%] Built target test_basic_proxy +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/DependInfo.cmake "--color=" +[ 9%] Built target test_blast +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/depend +[ 9%] Built target test_align_parallel_algorithm_sse4 +[ 10%] Built target test_basic_iterator +make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/depend +[ 10%] Built target test_bed_io +make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/depend +make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/DependInfo.cmake "--color=" +Dependencies file "tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/test_graph_algorithms.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/depend +Dependencies file "tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/depend +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/test_graph_types_iterators.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/test_graph_types_derived.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_derived.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_derived.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/DependInfo.cmake "--color=" +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/test_graph_types_property_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/compiler_depend.internal". +Dependencies file "tests/gff_io/CMakeFiles/test_gff_io.dir/test_gff_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/DependInfo.cmake "--color=" +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/test_graph_types_utils.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/DependInfo.cmake "--color=" +Dependencies file "tests/gff_io/CMakeFiles/test_gff_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/gff_io/CMakeFiles/test_gff_io.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_utils.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_utils.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/DependInfo.cmake "--color=" +Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/test_graph_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/test_graph_types_types.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". +Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/test_graph_msa.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend +Dependencies file "tests/graph_types/CMakeFiles/test_graph_types_types.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types/CMakeFiles/test_graph_types_types.dir/compiler_depend.internal". +Dependencies file "tests/graph_align/CMakeFiles/test_graph_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_align/CMakeFiles/test_graph_align.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/test_index_crosscompare_char.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/depend +Dependencies file "tests/graph_msa/CMakeFiles/test_graph_msa.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa/CMakeFiles/test_graph_msa.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/depend +make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/depend +make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/DependInfo.cmake "--color=" +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/test_index_crosscompare_char_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/depend +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_graph_algorithms +Consolidate compiler generated dependencies of target test_graph_types_types +Consolidate compiler generated dependencies of target test_graph_types_property_map +Consolidate compiler generated dependencies of target test_index_crosscompare_char +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/find/CMakeFiles/test_find.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_graph_types_derived +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_graph_msa +make -f tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build.make tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_graph_types_utils +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_graph_align +Consolidate compiler generated dependencies of target test_graph_types_iterators +make -f tests/graph_msa/CMakeFiles/test_graph_msa.dir/build.make tests/graph_msa/CMakeFiles/test_graph_msa.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/test_index_crosscompare_dna.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_gff_io +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/consensus/CMakeFiles/test_consensus.dir/build'. +Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/test_index_sa_bwtwalk.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/test_index_creation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". +make -f tests/gff_io/CMakeFiles/test_gff_io.dir/build.make tests/gff_io/CMakeFiles/test_gff_io.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/test_index_qgram.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". +make -f tests/graph_align/CMakeFiles/test_graph_align.dir/build.make tests/graph_align/CMakeFiles/test_graph_align.dir/build +make -f tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_qgram.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_qgram.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_creation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_creation.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build'. +make[3]: Nothing to be done for 'tests/graph_algorithms/CMakeFiles/test_graph_algorithms.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build +make -f tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/test_index_crosscompare_dna_dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". +make -f tests/graph_types/CMakeFiles/test_graph_types_types.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_types.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/consensus_v2/CMakeFiles/test_consensus_v2.dir/build'. +make[3]: Nothing to be done for 'tests/gff_io/CMakeFiles/test_gff_io.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/graph_msa/CMakeFiles/test_graph_msa.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build.make tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_derived.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_crosscompare_char.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_types.dir/build'. +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_property_map.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_types.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/graph_align/CMakeFiles/test_graph_align.dir/build'. -make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/test_index_fm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/graph_msa/CMakeFiles/test_graph_msa.dir/build'. +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_utils.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_base.dir/test_index_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_char.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_creation.dir/build'. +make[3]: Nothing to be done for 'tests/graph_types/CMakeFiles/test_graph_types_iterators.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_view.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/depend +Consolidate compiler generated dependencies of target test_index_crosscompare_dna +Consolidate compiler generated dependencies of target test_index_sa_bwtwalk +Consolidate compiler generated dependencies of target test_index_crosscompare_char_dfi +Consolidate compiler generated dependencies of target test_index_crosscompare_dna_dfi +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_index_creation +make -f tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build +Consolidate compiler generated dependencies of target test_index_drawing +Consolidate compiler generated dependencies of target test_index_fm_sparse_string +Consolidate compiler generated dependencies of target test_index_qgram +Consolidate compiler generated dependencies of target test_index_shapes +make -f tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build.make tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_creation.dir/build.make tests/index/CMakeFiles/test_index_creation.dir/build +Consolidate compiler generated dependencies of target test_index_fm_rank_dictionary +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". +[ 10%] Built target test_graph_msa +make -f tests/index/CMakeFiles/test_index_qgram.dir/build.make tests/index/CMakeFiles/test_index_qgram.dir/build +make -f tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build +make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build.make tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build +[ 11%] Built target test_graph_algorithms +make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build +make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build +[ 11%] Built target test_gff_io +make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/depend +[ 11%] Built target test_graph_types_derived +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". +[ 11%] Built target test_graph_types_property_map +Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_dna_dfi.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_qgram.dir/build'. +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_shapes.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_sa_bwtwalk.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 5%] Built target test_blast -[ 5%] Built target test_graph_types_iterators -[ 5%] Built target test_basic_exception -[ 5%] Built target test_arg_parse_version_check -[ 5%] Built target test_bam_io -[ 5%] Built target test_align_split -[ 6%] Built target test_align_profile -[ 6%] Built target test_arg_parse -[ 6%] Built target test_alignment_free -[ 6%] Built target test_basic_fundamental -[ 6%] Built target test_basic_metaprogramming -make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/depend -make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/depend -[ 7%] Built target test_basic_aggregate -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/depend -make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/DependInfo.cmake "--color=" +[ 11%] Built target test_index_crosscompare_char make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/depend -[ 7%] Built target test_basic_concept -[ 7%] Built target test_basic_allocator -[ 7%] Built target test_basic_parallelism -make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/depend +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_qgram.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_creation.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/DependInfo.cmake "--color=" -[ 7%] Built target test_basic_alphabet +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/depend +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/DependInfo.cmake "--color=" -[ 7%] Built target test_basic_math -make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/depend -[ 7%] Built target test_basic_container -[ 7%] Built target test_bed_io +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_char_dfi.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 12%] Built target test_graph_types_types +[ 12%] Built target test_graph_align make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/DependInfo.cmake "--color=" -[ 8%] Built target test_basic_iterator -[ 9%] Built target test_basic_smart_pointer -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/depend +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_drawing.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/depend -[ 9%] Built target test_consensus +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 12%] Built target test_graph_types_iterators make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_crosscompare_dna.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 12%] Built target test_graph_types_utils +Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". +Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_index_view +Consolidate compiler generated dependencies of target test_find2_index_approx +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend +Consolidate compiler generated dependencies of target test_find_backtracking +[ 12%] Built target test_index_sa_bwtwalk +Consolidate compiler generated dependencies of target test_index_repeats +Consolidate compiler generated dependencies of target test_index_fm +Consolidate compiler generated dependencies of target test_index_base +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/build +make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/build +Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/DependInfo.cmake "--color=" -[ 9%] Built target test_consensus_v2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/DependInfo.cmake "--color=" -make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/depend -[ 9%] Built target test_graph_types_property_map -[ 10%] Built target test_find -[ 10%] Built target test_graph_align -make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/depend -[ 11%] Built target test_graph_algorithms -[ 11%] Built target test_gff_io +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_index_vstree +Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/build +Consolidate compiler generated dependencies of target test_index_bifm +[ 12%] Built target test_index_crosscompare_dna_dfi +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/build +[ 12%] Built target test_index_creation +Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". +make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/build +[ 12%] Built target test_index_crosscompare_char_dfi +[ 12%] Built target test_index_qgram make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/DependInfo.cmake "--color=" -[ 11%] Built target test_graph_types_derived -make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/depend -[ 11%] Built target test_graph_msa -make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/depend -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/depend -[ 11%] Built target test_basic_proxy -[ 11%] Built target test_index_creation +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_view.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/build +make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_base.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/DependInfo.cmake "--color=" -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/depend +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_bifm.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/DependInfo.cmake "--color=" -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/depend -[ 12%] Built target test_graph_types_utils -[ 12%] Built target test_graph_types_types -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/depend +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_vstree.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 12%] Built target test_index_drawing +[ 13%] Built target test_index_fm_sparse_string +[ 15%] Built target test_index_crosscompare_dna +[ 12%] Built target test_index_shapes make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_repeats.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/depend -[ 12%] Built target test_index_crosscompare_char -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/DependInfo.cmake "--color=" make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/depend +[ 15%] Built target test_index_fm_rank_dictionary make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/DependInfo.cmake "--color=" -make -f tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/depend -make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend +make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/map /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/DependInfo.cmake "--color=" -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find2_index_approx.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/depend +Consolidate compiler generated dependencies of target test_index_swift +Consolidate compiler generated dependencies of target test_journaled_set +Consolidate compiler generated dependencies of target test_index_finder +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/DependInfo.cmake "--color=" +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". +[ 15%] Built target test_index_vstree +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find_backtracking.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_basic_observable +make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 15%] Built target test_index_fm make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/DependInfo.cmake "--color=" +make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/build +make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/build +[ 15%] Built target test_index_base +make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build +make -f tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/depend +[ 15%] Built target test_index_bifm +Dependencies file "tests/map/CMakeFiles/test_map.dir/test_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". +make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/depend +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/depend +make[3]: Nothing to be done for 'tests/journaled_set/CMakeFiles/test_journaled_set.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" -[ 12%] Built target test_index_crosscompare_char_dfi +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_finder.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/map/CMakeFiles/test_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/test_journaled_string_tree_traverser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". +[ 16%] Built target test_index_view make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/DependInfo.cmake "--color=" -make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/depend +[ 16%] Built target test_index_repeats +Dependencies file "tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/DependInfo.cmake "--color=" -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/DependInfo.cmake "--color=" -make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/depend -[ 12%] Built target test_index_crosscompare_dna_dfi -[ 12%] Built target test_index_sa_bwtwalk make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/misc/CMakeFiles/test_misc.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/DependInfo.cmake "--color=" +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/depend +[ 16%] Built target test_find2_index_approx +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" -[ 13%] Built target test_index_crosscompare_dna -[ 13%] Built target test_index_qgram +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" +Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_swift.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_journaled_string_tree +Consolidate compiler generated dependencies of target test_delta_map +Consolidate compiler generated dependencies of target test_misc +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build +Consolidate compiler generated dependencies of target test_journaled_string_tree_traverser +make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build +Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". +make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/build +make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/depend +[ 16%] Built target test_journaled_set make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/depend +[ 16%] Built target test_find_backtracking make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/depend -Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/test_index_bifm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/depend -Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/test_index_shapes.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/depend -make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/depend -Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/test_index_fm_rank_dictionary.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". +Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/DependInfo.cmake "--color=" +make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/DependInfo.cmake "--color=" make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/depend -Dependencies file "tests/index/CMakeFiles/test_index_view.dir/test_index_view.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/test_index_drawing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_base.dir/test_index_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_bifm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_bifm.dir/compiler_depend.internal". -make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/depend +Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/misc/CMakeFiles/test_misc.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/roi_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/DependInfo.cmake "--color=" -Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/test_index_fm_sparse_string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/DependInfo.cmake "--color=" -Dependencies file "tests/index/CMakeFiles/test_index_shapes.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_shapes.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/DependInfo.cmake "--color=" -Dependencies file "tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_view.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_view.dir/compiler_depend.internal". +make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/depend +Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/DependInfo.cmake "--color=" -Dependencies file "tests/index/CMakeFiles/test_index_drawing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_drawing.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/test_index_fm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_base.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/test_index_vstree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_fm_sparse_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm_sparse_string.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/test_index_finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". +Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/depend +Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/DependInfo.cmake "--color=" -Dependencies file "tests/index/CMakeFiles/test_index_fm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_fm.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_vstree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_vstree.dir/compiler_depend.internal". +Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/depend -Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/test_index_swift.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_finder.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/test_find_backtracking.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/test_find2_index_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". +Dependencies file "tests/random/CMakeFiles/test_random.dir/test_random.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". +Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". +Dependencies file "tests/random/CMakeFiles/test_random.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/DependInfo.cmake "--color=" -Dependencies file "tests/index/CMakeFiles/test_index_swift.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_swift.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_find_backtracking.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find_backtracking.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_find2_index_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_find2_index_approx.dir/compiler_depend.internal". +[ 16%] Built target test_index_swift +make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_index_bifm -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/test_basic_observable.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/test_delta_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_index_drawing -Consolidate compiler generated dependencies of target test_index_fm -Consolidate compiler generated dependencies of target test_index_base -Consolidate compiler generated dependencies of target test_index_fm_sparse_string -Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/test_journaled_set.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_index_shapes -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/test_journaled_string_tree_traverser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". -Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/test_index_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_bifm.dir/build.make tests/index/CMakeFiles/test_index_bifm.dir/build -Consolidate compiler generated dependencies of target test_index_fm_rank_dictionary -Consolidate compiler generated dependencies of target test_index_view -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/test_journaled_string_tree_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/compiler_depend.internal". -Dependencies file "tests/map/CMakeFiles/test_map.dir/test_map.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". -Dependencies file "tests/misc/CMakeFiles/test_misc.dir/test_misc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_index_vstree -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/compiler_depend.internal". -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/test_journaled_string_tree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". -Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/test_modifier_cyclic_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". -Dependencies file "tests/journaled_set/CMakeFiles/test_journaled_set.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set/CMakeFiles/test_journaled_set.dir/compiler_depend.internal". -Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/test_modifier.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". -Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_index_finder -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/index/CMakeFiles/test_index_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index/CMakeFiles/test_index_repeats.dir/compiler_depend.internal". -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/compiler_depend.internal". -Dependencies file "tests/map/CMakeFiles/test_map.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/map/CMakeFiles/test_map.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build.make tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/misc/CMakeFiles/test_misc.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/misc/CMakeFiles/test_misc.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/DependInfo.cmake "--color=" -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_drawing.dir/build.make tests/index/CMakeFiles/test_index_drawing.dir/build -Dependencies file "tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/modifier/CMakeFiles/test_modifier.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier/CMakeFiles/test_modifier.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build.make tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build -Dependencies file "tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_shapes.dir/build.make tests/index/CMakeFiles/test_index_shapes.dir/build -Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/test_parallel.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_base.dir/build.make tests/index/CMakeFiles/test_index_base.dir/build -Consolidate compiler generated dependencies of target test_index_swift -Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/test_multiple_translation_units_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". -Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_find2_index_approx -Dependencies file "tests/parallel/CMakeFiles/test_parallel.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel/CMakeFiles/test_parallel.dir/compiler_depend.internal". -Dependencies file "tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". -Dependencies file "tests/random/CMakeFiles/test_random.dir/test_random.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". -Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/platform/CMakeFiles/test_platform.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/DependInfo.cmake "--color=" +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/depend Dependencies file "tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/compiler_depend.internal". -Dependencies file "tests/realign/CMakeFiles/test_realign.dir/test_realign.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_find_backtracking -Dependencies file "tests/random/CMakeFiles/test_random.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random/CMakeFiles/test_random.dir/compiler_depend.internal". -Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/test_parse_lm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". -Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/test_roi_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_fm.dir/build.make tests/index/CMakeFiles/test_index_fm.dir/build -Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_journaled_string_tree_traverser -make -f tests/index/CMakeFiles/test_index_vstree.dir/build.make tests/index/CMakeFiles/test_index_vstree.dir/build -Consolidate compiler generated dependencies of target test_modifier -Consolidate compiler generated dependencies of target test_misc -Dependencies file "tests/parse_lm/CMakeFiles/test_parse_lm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm/CMakeFiles/test_parse_lm.dir/compiler_depend.internal". +make -f tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build.make tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/depend +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend +make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_random Consolidate compiler generated dependencies of target test_modifier_cyclic_shape -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_view.dir/build.make tests/index/CMakeFiles/test_index_view.dir/build -Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_parse_lm Consolidate compiler generated dependencies of target test_map -Dependencies file "tests/realign/CMakeFiles/test_realign.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". -Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_index_finder.dir/build.make tests/index/CMakeFiles/test_index_finder.dir/build -Dependencies file "tests/score/CMakeFiles/test_score.dir/test_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_journaled_set -Consolidate compiler generated dependencies of target test_delta_map -make -f tests/index/CMakeFiles/test_find_backtracking.dir/build.make tests/index/CMakeFiles/test_find_backtracking.dir/build -Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". -make -f tests/index/CMakeFiles/test_find2_index_approx.dir/build.make tests/index/CMakeFiles/test_find2_index_approx.dir/build -Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_platform -Consolidate compiler generated dependencies of target test_journaled_string_tree_find -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_basic_observable Consolidate compiler generated dependencies of target test_parallel -Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_bifm.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/score/CMakeFiles/test_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_swift.dir/build.make tests/index/CMakeFiles/test_index_swift.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". -make -f tests/journaled_set/CMakeFiles/test_journaled_set.dir/build.make tests/journaled_set/CMakeFiles/test_journaled_set.dir/build -Consolidate compiler generated dependencies of target test_random +Consolidate compiler generated dependencies of target test_modifier +Consolidate compiler generated dependencies of target test_journaled_string_tree_find +make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_drawing.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_rank_dictionary.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm_sparse_string.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build.make tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build -Consolidate compiler generated dependencies of target test_pipe make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/test_seeds_extension.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". +Dependencies file "tests/platform/CMakeFiles/test_platform.dir/test_platform.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". +Dependencies file "tests/platform/CMakeFiles/test_platform.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform/CMakeFiles/test_platform.dir/compiler_depend.internal". +Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/test_pipe.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". +Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/test_reduced_aminoacid.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_extension.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_extension.dir/compiler_depend.internal". +[ 16%] Built target test_index_finder +Dependencies file "tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seq_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/DependInfo.cmake "--color=" +[ 16%] Built target test_basic_observable make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_journaled_string_tree -Consolidate compiler generated dependencies of target test_index_repeats -make -f tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build.make tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build -make -f tests/map/CMakeFiles/test_map.dir/build.make tests/map/CMakeFiles/test_map.dir/build -make -f tests/misc/CMakeFiles/test_misc.dir/build.make tests/misc/CMakeFiles/test_misc.dir/build +Dependencies file "tests/realign/CMakeFiles/test_realign.dir/test_realign.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". +Dependencies file "tests/pipe/CMakeFiles/test_pipe.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe/CMakeFiles/test_pipe.dir/compiler_depend.internal". +Dependencies file "tests/realign/CMakeFiles/test_realign.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign/CMakeFiles/test_realign.dir/compiler_depend.internal". +Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/test_rna_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". make -f tests/modifier/CMakeFiles/test_modifier.dir/build.make tests/modifier/CMakeFiles/test_modifier.dir/build +[ 16%] Built target test_journaled_string_tree_traverser +[ 16%] Built target test_misc +Dependencies file "tests/score/CMakeFiles/test_score.dir/test_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". +Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/test_roi_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". make -f tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build.make tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_reduced_aminoacid -Consolidate compiler generated dependencies of target test_parse_lm -Consolidate compiler generated dependencies of target test_realign -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build +make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build +Dependencies file "tests/rna_io/CMakeFiles/test_rna_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io/CMakeFiles/test_rna_io.dir/compiler_depend.internal". +Dependencies file "tests/roi_io/CMakeFiles/test_roi_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io/CMakeFiles/test_roi_io.dir/compiler_depend.internal". +[ 16%] Built target test_delta_map +Dependencies file "tests/score/CMakeFiles/test_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score/CMakeFiles/test_score.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_fm.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/modifier/CMakeFiles/test_modifier.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/build +[ 16%] Built target test_journaled_string_tree +make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_shapes.dir/build'. +make[3]: Nothing to be done for 'tests/map/CMakeFiles/test_map.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/index/CMakeFiles/test_index_repeats.dir/build.make tests/index/CMakeFiles/test_index_repeats.dir/build Dependencies file "tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/test_seeds_global_chaining.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_roi_io -make -f tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build.make tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build -Consolidate compiler generated dependencies of target test_rna_io -make -f tests/parallel/CMakeFiles/test_parallel.dir/build.make tests/parallel/CMakeFiles/test_parallel.dir/build -make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/build -Consolidate compiler generated dependencies of target test_score -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_finder.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find_backtracking.dir/build'. +make[3]: Nothing to be done for 'tests/parallel/CMakeFiles/test_parallel.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_vstree.dir/build'. +make[3]: Nothing to be done for 'tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/random/CMakeFiles/test_random.dir/build.make tests/random/CMakeFiles/test_random.dir/build -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/test_seeds_seed_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". Dependencies file "tests/seeds/CMakeFiles/test_seeds_combination.dir/test_seeds_combination.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/parse_lm/CMakeFiles/test_parse_lm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/build +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_combination.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_multiple_translation_units -make[3]: Nothing to be done for 'tests/journaled_set/CMakeFiles/test_journaled_set.dir/build'. -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_view.dir/build'. +make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'tests/random/CMakeFiles/test_random.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/compiler_depend.internal". +make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/depend +Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/compiler_depend.internal". +make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/depend +Consolidate compiler generated dependencies of target test_rna_io +Consolidate compiler generated dependencies of target test_score +Consolidate compiler generated dependencies of target test_seeds_seed_set_base make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_swift.dir/build'. +Consolidate compiler generated dependencies of target test_seeds_seed_chained +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_platform +Consolidate compiler generated dependencies of target test_pipe +Consolidate compiler generated dependencies of target test_realign +Consolidate compiler generated dependencies of target test_roi_io +Consolidate compiler generated dependencies of target test_seeds_global_chaining +Consolidate compiler generated dependencies of target test_reduced_aminoacid +Consolidate compiler generated dependencies of target test_multiple_translation_units +make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/build +Consolidate compiler generated dependencies of target test_seeds_extension make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_find2_index_approx.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_extension -make -f tests/parse_lm/CMakeFiles/test_parse_lm.dir/build.make tests/parse_lm/CMakeFiles/test_parse_lm.dir/build -make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_base.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_delta_map.dir/build'. -make[3]: Nothing to be done for 'tests/modifier/CMakeFiles/test_modifier.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/build -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/test_seeds_seed_chained.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/modifier_cyclic_shape/CMakeFiles/test_modifier_cyclic_shape.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_combination.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_combination.dir/compiler_depend.internal". make -f tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build.make tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_traverser.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/misc/CMakeFiles/test_misc.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". +Dependencies file "tests/seq_io/CMakeFiles/test_seq_io.dir/test_seq_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/compiler_depend.internal". +make -f tests/pipe/CMakeFiles/test_pipe.dir/build.make tests/pipe/CMakeFiles/test_pipe.dir/build +Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". +Dependencies file "tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/compiler_depend.internal". +Dependencies file "tests/seq_io/CMakeFiles/test_seq_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/compiler_depend.internal". +make -f tests/platform/CMakeFiles/test_platform.dir/build.make tests/platform/CMakeFiles/test_platform.dir/build +make -f tests/realign/CMakeFiles/test_realign.dir/build.make tests/realign/CMakeFiles/test_realign.dir/build +make -f tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build.make tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build +make -f tests/rna_io/CMakeFiles/test_rna_io.dir/build.make tests/rna_io/CMakeFiles/test_rna_io.dir/build make -f tests/roi_io/CMakeFiles/test_roi_io.dir/build.make tests/roi_io/CMakeFiles/test_roi_io.dir/build -make -f tests/score/CMakeFiles/test_score.dir/build.make tests/score/CMakeFiles/test_score.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/map/CMakeFiles/test_map.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/seeds/CMakeFiles/test_seeds_extension.dir/build.make tests/seeds/CMakeFiles/test_seeds_extension.dir/build +Dependencies file "tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/compiler_depend.internal". +[ 16%] Built target test_modifier +make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build +make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/depend +Dependencies file "tests/sequence/CMakeFiles/test_sequence.dir/test_sequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/compiler_depend.internal". +make -f tests/simd/CMakeFiles/test_simd_vector.dir/build.make tests/simd/CMakeFiles/test_simd_vector.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/parallel/CMakeFiles/test_parallel.dir/build'. +make[3]: Nothing to be done for 'tests/score/CMakeFiles/test_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree_find.dir/build'. +make[3]: Nothing to be done for 'tests/platform/CMakeFiles/test_platform.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "tests/sequence/CMakeFiles/test_sequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_basic_observable.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/DependInfo.cmake "--color=" +[ 16%] Built target test_parallel make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'tests/platform/CMakeFiles/test_platform.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/journaled_string_tree/CMakeFiles/test_journaled_string_tree.dir/build'. +[ 17%] Built target test_map +[ 18%] Built target test_parse_lm +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/pipe/CMakeFiles/test_pipe.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 18%] Built target test_modifier_cyclic_shape +[ 18%] Built target test_journaled_string_tree_find make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/index/CMakeFiles/test_index_repeats.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence_journaled /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/random/CMakeFiles/test_random.dir/build'. +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_extension.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/parse_lm/CMakeFiles/test_parse_lm.dir/build'. +make[3]: Nothing to be done for 'tests/rna_io/CMakeFiles/test_rna_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_combination make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/roi_io/CMakeFiles/test_roi_io.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/realign/CMakeFiles/test_realign.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/score/CMakeFiles/test_score.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_global_chaining -make[3]: Nothing to be done for 'tests/reduced_aminoacid/CMakeFiles/test_reduced_aminoacid.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_seeds_seed_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/rna_io/CMakeFiles/test_rna_io.dir/build'. +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/roi_io/CMakeFiles/test_roi_io.dir/build'. +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/multiple_translation_units/CMakeFiles/test_multiple_translation_units.dir/build'. +Dependencies file "tests/sequence/CMakeFiles/test_sequence_v2.dir/test_sequence_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/compiler_depend.internal". +[ 18%] Built target test_random +Dependencies file "tests/sequence/CMakeFiles/test_sequence_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_seq_io +Consolidate compiler generated dependencies of target test_seeds_seed_set_unordered +Consolidate compiler generated dependencies of target test_seeds_banded_chain_alignment_interface +Consolidate compiler generated dependencies of target test_seeds_combination make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_extension.dir/build'. +Consolidate compiler generated dependencies of target test_seeds_align_banded_chain_impl make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build.make tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build -Consolidate compiler generated dependencies of target test_seeds_seed_chained make -f tests/seeds/CMakeFiles/test_seeds_combination.dir/build.make tests/seeds/CMakeFiles/test_seeds_combination.dir/build +Consolidate compiler generated dependencies of target test_seeds_seed_base +Dependencies file "tests/sequence/CMakeFiles/test_stringset_v2.dir/test_stringset_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_seeds_seed_diagonal +Consolidate compiler generated dependencies of target test_sequence make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build -[ 13%] Built target test_index_fm_rank_dictionary -[ 13%] Built target test_index_fm -[ 13%] Built target test_index_drawing -[ 13%] Built target test_find2_index_approx -[ 13%] Built target test_index_swift -[ 15%] Built target test_index_view -[ 15%] Built target test_index_shapes -[ 15%] Built target test_index_bifm -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_chained.dir/build'. +Dependencies file "tests/sequence/CMakeFiles/test_stringset_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_global_chaining.dir/build'. +make -f tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 16%] Built target test_index_fm_sparse_string -[ 16%] Built target test_index_finder -[ 16%] Built target test_index_base -[ 16%] Built target test_index_vstree +[ 19%] Built target test_rna_io +[ 19%] Built target test_score +make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build +Dependencies file "tests/simd/CMakeFiles/test_simd_vector.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/compiler_depend.internal". +make -f tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build.make tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build +Dependencies file "tests/simd/CMakeFiles/test_simd_vector.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/compiler_depend.internal". make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_combination.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/depend -[ 16%] Built target test_journaled_string_tree_traverser -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/depend -[ 16%] Built target test_delta_map -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/depend -[ 16%] Built target test_journaled_set -[ 16%] Built target test_find_backtracking -make -f tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build.make tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/depend -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/DependInfo.cmake "--color=" -make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/DependInfo.cmake "--color=" -[ 16%] Built target test_journaled_string_tree_find -make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/DependInfo.cmake "--color=" -make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/DependInfo.cmake "--color=" -make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/depend +make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build +[ 19%] Built target test_platform +[ 19%] Built target test_pipe +[ 19%] Built target test_roi_io +[ 19%] Built target test_reduced_aminoacid make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/seq_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/DependInfo.cmake "--color=" -make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/depend +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_base.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 19%] Built target test_multiple_translation_units +[ 19%] Built target test_seeds_seed_chained +[ 19%] Built target test_seeds_extension +make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/build +make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/build +[ 19%] Built target test_realign +[ 20%] Built target test_seeds_global_chaining +Dependencies file "tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/test_sequence_journaled.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/compiler_depend.internal". +Dependencies file "tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/DependInfo.cmake "--color=" -make -f tests/simd/CMakeFiles/test_simd_vector.dir/build.make tests/simd/CMakeFiles/test_simd_vector.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/depend make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'tests/seq_io/CMakeFiles/test_seq_io.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/sequence_journaled /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/DependInfo.cmake "--color=" -make -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/depend +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/DependInfo.cmake "--color=" -[ 17%] Built target test_map +make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/DependInfo.cmake "--color=" -[ 17%] Built target test_modifier_cyclic_shape -[ 17%] Built target test_index_repeats +[ 20%] Built target test_seeds_seed_set_base +make -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/depend make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.dir/depend make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/depend -[ 17%] Built target test_misc -[ 17%] Built target test_basic_observable -[ 17%] Built target test_modifier -[ 17%] Built target test_journaled_string_tree -[ 17%] Built target test_platform -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/DependInfo.cmake "--color=" -[ 17%] Built target test_parallel -[ 17%] Built target test_roi_io -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/DependInfo.cmake "--color=" -[ 17%] Built target test_pipe -[ 17%] Built target test_realign make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/depend -[ 18%] Built target test_reduced_aminoacid -[ 17%] Built target test_random -[ 18%] Built target test_parse_lm -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/DependInfo.cmake "--color=" -[ 19%] Built target test_rna_io -[ 19%] Built target test_multiple_translation_units +Consolidate compiler generated dependencies of target test_stringset_v2 +Consolidate compiler generated dependencies of target test_sequence_journaled make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/depend make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/depend +Consolidate compiler generated dependencies of target test_simd_vector +Consolidate compiler generated dependencies of target test_sequence_v2 make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 19%] Built target test_seeds_seed_chained cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/DependInfo.cmake "--color=" -[ 19%] Built target test_score +make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/swift_local /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/DependInfo.cmake "--color=" -[ 19%] Built target test_seeds_extension +make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/DependInfo.cmake "--color=" +make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/DependInfo.cmake "--color=" -[ 20%] Built target test_seeds_seed_base -[ 20%] Built target test_seeds_global_chaining -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/test_seeds_seed_diagonal.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". +make -f tests/simd/CMakeFiles/test_simd_vector.dir/build.make tests/simd/CMakeFiles/test_simd_vector.dir/build +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_stringset_v2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence_v2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_seeds_seed_diagonal +[ 20%] Built target test_seeds_seed_set_unordered [ 20%] Built target test_seeds_combination make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/DependInfo.cmake "--color=" -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/depend +make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target test_seeds_seed_base +[ 20%] Built target test_sequence +[ 20%] Built target test_seeds_align_banded_chain_impl +[ 21%] Built target test_seq_io +[ 21%] Built target test_seeds_banded_chain_alignment_interface +Dependencies file "tests/simd/CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/compiler_depend.internal". +Dependencies file "tests/simd/CMakeFiles/test_simd_vector_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/compiler_depend.internal". make -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/depend -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/compiler_depend.internal". +Dependencies file "tests/swift_local/CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/depend +Dependencies file "tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/test_simple_intervals_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/depend make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/DependInfo.cmake "--color=" +Dependencies file "tests/swift_local/CMakeFiles/test_find_swift.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/compiler_depend.internal". +Dependencies file "tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend +Dependencies file "tests/stream/CMakeFiles/test_stream.dir/test_stream.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/tests/vcf_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/DependInfo.cmake "--color=" -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/test_seeds_seed_set_unordered.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/test_align_banded_chain_impl.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/DependInfo.cmake "--color=" -Dependencies file "tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/test_sequence_journaled.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/depend -Dependencies file "tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/test_seeds_seed_set_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/test_banded_chain_alignment_interface.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/compiler_depend.internal". -Dependencies file "tests/seq_io/CMakeFiles/test_seq_io.dir/test_seq_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend -make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/DependInfo.cmake "--color=" -Dependencies file "tests/sequence/CMakeFiles/test_sequence.dir/test_sequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/depend +Consolidate compiler generated dependencies of target test_simple_intervals_io +Dependencies file "tests/stream/CMakeFiles/test_stream.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build +Dependencies file "tests/store/CMakeFiles/test_store.dir/test_store.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_seeds_seed_diagonal -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/compiler_depend.internal". -Dependencies file "tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/depend -Dependencies file "tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/compiler_depend.internal". -Dependencies file "tests/seq_io/CMakeFiles/test_seq_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io/CMakeFiles/test_seq_io.dir/compiler_depend.internal". -Dependencies file "tests/sequence/CMakeFiles/test_sequence_v2.dir/test_sequence_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/depend -Dependencies file "tests/sequence/CMakeFiles/test_sequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence.dir/compiler_depend.internal". +[ 21%] Built target test_sequence_journaled make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/DependInfo.cmake "--color=" +Dependencies file "tests/store/CMakeFiles/test_store.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/depend +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/depend +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/depend +make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/compiler_depend.internal". -Dependencies file "tests/sequence/CMakeFiles/test_sequence_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_sequence_v2.dir/compiler_depend.internal". -Dependencies file "tests/simd/CMakeFiles/test_simd_vector.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/DependInfo.cmake "--color=" -Dependencies file "tests/sequence/CMakeFiles/test_stringset_v2.dir/test_stringset_v2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/compiler_depend.internal". -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_sse4.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/compiler_depend.internal". -Dependencies file "tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/test_simple_intervals_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/compiler_depend.internal". +[ 21%] Built target test_stringset_v2 +[ 21%] Built target test_sequence_v2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/DependInfo.cmake "--color=" -Dependencies file "tests/simd/CMakeFiles/test_simd_vector.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_sequence_journaled -make -f tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build -make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/depend -Dependencies file "tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/compiler_depend.internal". -Dependencies file "tests/sequence/CMakeFiles/test_stringset_v2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/sequence/CMakeFiles/test_stringset_v2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/depend -Dependencies file "tests/simd/CMakeFiles/test_simd_vector_sse4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_sse4.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/depend -Consolidate compiler generated dependencies of target test_seeds_seed_set_unordered +make[3]: Nothing to be done for 'tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/depend -Consolidate compiler generated dependencies of target test_seeds_align_banded_chain_impl -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/DependInfo.cmake "--color=" -make -f tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build.make tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/depend +Dependencies file "tests/tabix_io/CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/compiler_depend.internal". +Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/test_statistics.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_simd_vector_avx2 -Consolidate compiler generated dependencies of target test_sequence +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/DependInfo.cmake "--color=" +Dependencies file "tests/tabix_io/CMakeFiles/test_tabix_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/compiler_depend.internal". +Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/compiler_depend.internal". +[ 21%] Built target test_simd_vector +Dependencies file "tests/simd/CMakeFiles/test_simd_vector_avx2.dir/test_simd_vector.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/compiler_depend.internal". +Dependencies file "tests/simd/CMakeFiles/test_simd_vector_avx2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/simd/CMakeFiles/test_simd_vector_avx2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/DependInfo.cmake "--color=" -Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/test_statistics.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/compiler_depend.internal". -Dependencies file "tests/store/CMakeFiles/test_store.dir/test_store.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/depend make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/depend -Consolidate compiler generated dependencies of target test_sequence_v2 -make -f tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build.make tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend -Consolidate compiler generated dependencies of target test_seq_io -Consolidate compiler generated dependencies of target test_simple_intervals_io -Dependencies file "tests/tabix_io/CMakeFiles/test_tabix_io.dir/test_tabix_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/compiler_depend.internal". +Dependencies file "tests/translation/CMakeFiles/test_translation.dir/test_translation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/compiler_depend.internal". Dependencies file "tests/translation/CMakeFiles/test_translation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation/CMakeFiles/test_translation.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_seeds_seed_set_base -Consolidate compiler generated dependencies of target test_simd_vector -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend -Dependencies file "tests/store/CMakeFiles/test_store.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store/CMakeFiles/test_store.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_seeds_banded_chain_alignment_interface -Consolidate compiler generated dependencies of target test_simd_vector_sse4 -Dependencies file "tests/statistics/CMakeFiles/test_statistics.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/statistics/CMakeFiles/test_statistics.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/compiler_depend.internal". +Dependencies file "tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/stream/CMakeFiles/test_stream.dir/test_stream.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_stringset_v2 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/tabix_io/CMakeFiles/test_tabix_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/tabix_io/CMakeFiles/test_tabix_io.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/compiler_depend.internal". +Dependencies file "tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_align_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_align_gaps_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/depend +Dependencies file "demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend +make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/depend +make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/DependInfo.cmake "--color=" +Dependencies file "tests/vcf_io/CMakeFiles/test_vcf_io.dir/test_vcf_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/DependInfo.cmake "--color=" -Dependencies file "tests/stream/CMakeFiles/test_stream.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/stream/CMakeFiles/test_stream.dir/compiler_depend.internal". +Dependencies file "tests/vcf_io/CMakeFiles/test_vcf_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/depend +Consolidate compiler generated dependencies of target test_simd_vector_avx2 +Consolidate compiler generated dependencies of target test_simd_vector_sse4 +Consolidate compiler generated dependencies of target test_statistics +Consolidate compiler generated dependencies of target test_tabix_io +Consolidate compiler generated dependencies of target test_store make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/swift_local/CMakeFiles/test_find_swift.dir/test_find_swift.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_align_align +Consolidate compiler generated dependencies of target test_translation make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_unbanded +Consolidate compiler generated dependencies of target demo_dox_align_compute_alignment_stats +Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_find_swift make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/test_ucsc_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence_journaled/CMakeFiles/test_sequence_journaled.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build -Dependencies file "tests/swift_local/CMakeFiles/test_find_swift.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/swift_local/CMakeFiles/test_find_swift.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build.make tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_diagonal.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build.make tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build -Dependencies file "tests/vcf_io/CMakeFiles/test_vcf_io.dir/test_vcf_io.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/compiler_depend.internal". -Dependencies file "tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/compiler_depend.internal". -make -f tests/seq_io/CMakeFiles/test_seq_io.dir/build.make tests/seq_io/CMakeFiles/test_seq_io.dir/build -make -f tests/sequence/CMakeFiles/test_sequence.dir/build.make tests/sequence/CMakeFiles/test_sequence.dir/build -Consolidate compiler generated dependencies of target test_stream -Consolidate compiler generated dependencies of target test_translation -Dependencies file "demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/dox/align/compute_alignment_stats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/compiler_depend.internal". -make -f tests/sequence/CMakeFiles/test_sequence_v2.dir/build.make tests/sequence/CMakeFiles/test_sequence_v2.dir/build -Dependencies file "tests/vcf_io/CMakeFiles/test_vcf_io.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io/CMakeFiles/test_vcf_io.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_tabix_io -Dependencies file "demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/blast/blast_in_lowlevel.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/compiler_depend.internal". -make -f tests/sequence/CMakeFiles/test_stringset_v2.dir/build.make tests/sequence/CMakeFiles/test_stringset_v2.dir/build -make -f tests/simd/CMakeFiles/test_simd_vector.dir/build.make tests/simd/CMakeFiles/test_simd_vector.dir/build -make -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/compiler_depend.internal". -make -f tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build.make tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build -make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_align_align.dir/dox/align/align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/build -Consolidate compiler generated dependencies of target test_store -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_align_banded_chain_impl.dir/build'. +Consolidate compiler generated dependencies of target test_stream +Dependencies file "demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_align_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_align.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_statistics -Consolidate compiler generated dependencies of target test_ucsc_io -Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/dox/align/global_alignment_unbanded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/dox/align/global_alignment_banded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_align_gaps_example.dir/dox/align/gaps_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_dox_align_integrate_align.dir/dox/align/integrate_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_integrate_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/compiler_depend.internal". +[ 21%] Built target test_simple_intervals_io Dependencies file "demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/dox/align_extend/extend_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_vcf_io Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/dox/align_profile/profile_seq_frac_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/DependInfo.cmake "--color=" +make -f tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build.make tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build +make -f tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build.make tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build +make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_enable_if.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_align_gaps_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_gaps_example.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/compiler_depend.internal". make -f tests/store/CMakeFiles/test_store.dir/build.make tests/store/CMakeFiles/test_store.dir/build -Consolidate compiler generated dependencies of target test_find_swift -Dependencies file "demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence_v2.dir/build'. +Consolidate compiler generated dependencies of target test_vcf_io +Consolidate compiler generated dependencies of target demo_dox_align_gaps_example +Consolidate compiler generated dependencies of target test_ucsc_io +Consolidate compiler generated dependencies of target demo_dox_align_integrate_align +Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_file_in +Consolidate compiler generated dependencies of target demo_dox_align_extend_extend_alignment +Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_banded +make -f tests/stream/CMakeFiles/test_stream.dir/build.make tests/stream/CMakeFiles/test_stream.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_stringset_v2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_align_integrate_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_integrate_align.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_blast_blast_in_lowlevel make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/dox/align_split/split_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/compiler_depend.internal". -make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/dox/align_profile/profile_seq_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/sequence/CMakeFiles/test_sequence.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_arg_parse_argument_parser +Dependencies file "demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/dox/bam_io/bam_tags_dict.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_avx2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_unordered.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_align_split_split_alignment make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_banded_chain_alignment_interface.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_control make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/simple_intervals_io/CMakeFiles/test_simple_intervals_io.dir/build'. +make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_align_compute_alignment_stats +Consolidate compiler generated dependencies of target demo_dox_basic_enable_if make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seq_io/CMakeFiles/test_seq_io.dir/build'. +make[3]: Nothing to be done for 'tests/statistics/CMakeFiles/test_statistics.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/dox/arg_parse/argument_parser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/seeds/CMakeFiles/test_seeds_seed_set_base.dir/build'. -make[3]: Nothing to be done for 'tests/simd/CMakeFiles/test_simd_vector_sse4.dir/build'. +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/compiler_depend.internal". +make -f tests/tabix_io/CMakeFiles/test_tabix_io.dir/build.make tests/tabix_io/CMakeFiles/test_tabix_io.dir/build +Consolidate compiler generated dependencies of target demo_dox_basic_zip_iterator +Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_score +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f tests/translation/CMakeFiles/test_translation.dir/build.make tests/translation/CMakeFiles/test_translation.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/stream/CMakeFiles/test_stream.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/compiler_depend.internal". -make -f tests/statistics/CMakeFiles/test_statistics.dir/build.make tests/statistics/CMakeFiles/test_statistics.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_blast_blast_in_lowlevel +Dependencies file "demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/store/CMakeFiles/test_store.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/dox/bam_io/bam_file_in.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_align_align -Dependencies file "demos/CMakeFiles/demo_dox_basic_enable_if.dir/dox/basic/enable_if.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/dox/basic/metaprogramming_logic.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_unbanded -Dependencies file "demos/CMakeFiles/demo_dox_basic_enable_if.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_enable_if.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/translation/CMakeFiles/test_translation.dir/build'. +make[3]: Nothing to be done for 'tests/swift_local/CMakeFiles/test_find_swift.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/compiler_depend.internal". +make -f tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build.make tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build +make -f tests/vcf_io/CMakeFiles/test_vcf_io.dir/build.make tests/vcf_io/CMakeFiles/test_vcf_io.dir/build +make -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/tabix_io/CMakeFiles/test_tabix_io.dir/build'. +make[3]: Nothing to be done for 'tests/translation/CMakeFiles/test_translation.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_align_gaps_example +make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/build +make -f demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build.make demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'tests/vcf_io/CMakeFiles/test_vcf_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/dox/basic/metaprogramming_math.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_align_global_alignment_banded -make -f tests/swift_local/CMakeFiles/test_find_swift.dir/build.make tests/swift_local/CMakeFiles/test_find_swift.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tests/ucsc_io/CMakeFiles/test_ucsc_io.dir/build'. -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/dox/basic/metaprogramming_control.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_arg_parse_argument_parser -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build +make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build +make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build +make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/vcf_io/CMakeFiles/test_vcf_io.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_align_integrate_align -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_tags_dict +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build +Consolidate compiler generated dependencies of target demo_dox_basic_simple_type_construction make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/store/CMakeFiles/test_store.dir/build'. +make[3]: Nothing to be done for 'tests/tabix_io/CMakeFiles/test_tabix_io.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_align.dir/build.make demos/CMakeFiles/demo_dox_align_align.dir/build -Consolidate compiler generated dependencies of target demo_dox_align_extend_extend_alignment +Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_frac_score +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build +Consolidate compiler generated dependencies of target demo_dox_bed_io_UNUSED_bed_stream_read +Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_math +Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_switch +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_tags_dict Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_logic -make -f demos/CMakeFiles/demo_dox_align_gaps_example.dir/build.make demos/CMakeFiles/demo_dox_align_gaps_example.dir/build -make -f demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_align_split_split_alignment make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_integrate_align.dir/build.make demos/CMakeFiles/demo_dox_align_integrate_align.dir/build -Consolidate compiler generated dependencies of target demo_dox_basic_enable_if -make -f demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build.make demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build +Consolidate compiler generated dependencies of target demo_dox_consensus_consensus_alignment +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_gaps_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build.make demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build -Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_frac_score -Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_math -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build.make demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build -Consolidate compiler generated dependencies of target demo_dox_align_profile_profile_seq_score -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_compute_alignment_stats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_control make -f demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build.make demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build +make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build -make[3]: Nothing to be done for 'tests/statistics/CMakeFiles/test_statistics.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_bam_io_bam_file_in -make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/build -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build +make -f demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build +make -f demos/CMakeFiles/demo_dox_basic_enable_if.dir/build.make demos/CMakeFiles/demo_dox_basic_enable_if.dir/build make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build -make -f demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build.make demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'tests/swift_local/CMakeFiles/test_find_swift.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_align.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_gaps_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_integrate_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_unbanded.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_enable_if.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_integrate_align.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build +make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_arg_parse_argument_parser.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_global_alignment_banded.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_control.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_blast_blast_in_lowlevel.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_logic.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_math.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_seeds_seed_diagonal -[ 20%] Built target test_seeds_seed_set_unordered -make -f demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build.make demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build -[ 20%] Built target test_seeds_banded_chain_alignment_interface make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_extend_extend_alignment.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_split_split_alignment.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_sequence_journaled -[ 20%] Built target test_seeds_align_banded_chain_impl -[ 20%] Built target test_seeds_seed_set_base +make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build +make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bam_io_bam_tags_dict.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 20%] Built target test_sequence_v2 -[ 21%] Built target test_seq_io -[ 21%] Built target test_simd_vector_avx2 -[ 21%] Built target test_sequence -[ 21%] Built target test_simd_vector -[ 22%] Built target test_simple_intervals_io -[ 22%] Built target test_simd_vector_sse4 -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/depend -make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_profile_profile_seq_score.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_align_profile_profile_seq_frac_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 22%] Built target test_stringset_v2 -[ 22%] Built target test_stream -[ 22%] Built target test_translation -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/depend -make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 22%] Built target test_simd_vector_avx2 +[ 22%] Built target test_ucsc_io +[ 22%] Built target test_simd_vector_sse4 +[ 22%] Built target test_store +[ 22%] Built target test_find_swift +[ 23%] Built target test_tabix_io +[ 23%] Built target test_translation +[ 23%] Built target test_statistics +[ 23%] Built target test_stream +[ 23%] Built target demo_dox_align_global_alignment_banded +[ 24%] Built target demo_blast_blast_in_lowlevel +[ 24%] Built target test_vcf_io +[ 24%] Built target demo_dox_align_gaps_example +[ 24%] Built target demo_dox_align_align +[ 24%] Built target demo_dox_align_compute_alignment_stats +[ 25%] Built target demo_dox_align_global_alignment_unbanded +[ 25%] Built target demo_dox_align_profile_profile_seq_frac_score +[ 25%] Built target demo_dox_align_extend_extend_alignment +[ 25%] Built target demo_dox_align_integrate_align +[ 25%] Built target demo_dox_align_profile_profile_seq_score make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/depend make -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/DependInfo.cmake "--color=" -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bam_io_bam_file_in.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/DependInfo.cmake "--color=" +[ 25%] Built target demo_dox_align_split_split_alignment +make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/depend +[ 25%] Built target demo_dox_basic_metaprogramming_logic +[ 25%] Built target demo_dox_basic_enable_if +[ 25%] Built target demo_dox_bam_io_bam_file_in make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_index.dir/DependInfo.cmake "--color=" -[ 22%] Built target test_vcf_io +[ 25%] Built target demo_dox_arg_parse_argument_parser +make -f demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/depend +[ 25%] Built target demo_dox_basic_metaprogramming_math +[ 25%] Built target demo_dox_basic_zip_iterator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_online.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/depend make -f demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/depend make -f demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/depend -[ 22%] Built target test_store -make -f demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/depend +[ 26%] Built target demo_dox_bam_io_bam_tags_dict +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Built target demo_dox_basic_simple_type_construction +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/DependInfo.cmake "--color=" -[ 23%] Built target test_tabix_io -[ 23%] Built target test_find_swift -[ 24%] Built target test_ucsc_io -[ 24%] Built target demo_blast_blast_in_lowlevel -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/depend +[ 27%] Built target demo_dox_basic_metaprogramming_control +[ 27%] Built target demo_dox_bed_io_UNUSED_bed_stream_read make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/depend make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/depend -[ 24%] Built target test_statistics -[ 24%] Built target demo_dox_align_compute_alignment_stats -[ 24%] Built target demo_dox_align_align -[ 24%] Built target demo_dox_align_gaps_example -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 27%] Built target demo_dox_consensus_consensus_alignment +[ 27%] Built target demo_dox_basic_metaprogramming_switch +Dependencies file "demos/CMakeFiles/demo_dox_find_finder_index.dir/dox/find/finder_index.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_index.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/DependInfo.cmake "--color=" -[ 25%] Built target demo_dox_align_split_split_alignment -[ 25%] Built target demo_dox_align_global_alignment_unbanded +make -f demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/DependInfo.cmake "--color=" -[ 25%] Built target demo_dox_align_global_alignment_banded -[ 25%] Built target demo_dox_align_integrate_align +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/DependInfo.cmake "--color=" -[ 25%] Built target demo_dox_align_extend_extend_alignment -[ 25%] Built target demo_dox_basic_enable_if -[ 25%] Built target demo_dox_arg_parse_argument_parser -[ 26%] Built target demo_dox_bam_io_bam_tags_dict -[ 26%] Built target demo_dox_basic_metaprogramming_logic -[ 26%] Built target demo_dox_align_profile_profile_seq_score -[ 26%] Built target demo_dox_basic_metaprogramming_math -make -f demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_find_finder_index.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_index.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/depend -[ 26%] Built target demo_dox_basic_metaprogramming_control +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/dox/basic/zip_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/dox/basic/metaprogramming_switch.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_find_finder_online.dir/dox/find/finder_online.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_online.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/depend make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/dox/basic/simple_type_construction.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/DependInfo.cmake "--color=" -[ 26%] Built target demo_dox_align_profile_profile_seq_frac_score -Dependencies file "demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_find_finder_online.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_online.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/dox/bed_io/UNUSED_bed_stream_read.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/dox/gff_io/UNUSED_gff_stream_read.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/dox/find/finder_aho_corasick.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_basic_metaprogramming_switch +Dependencies file "demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/depend +make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/DependInfo.cmake "--color=" -[ 26%] Built target demo_dox_bam_io_bam_file_in -Dependencies file "demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/dox/consensus/consensus_alignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/dox/graph_algorithms/dag_shortest_path.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_index.dir/dox/find/finder_index.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_index.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build.make demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build -Consolidate compiler generated dependencies of target demo_dox_basic_zip_iterator -Dependencies file "demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/dox/gff_io/UNUSED_gff_stream_read.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/depend -Consolidate compiler generated dependencies of target demo_dox_basic_simple_type_construction -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_online.dir/dox/find/finder_online.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_online.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_bed_io_UNUSED_bed_stream_read -Consolidate compiler generated dependencies of target demo_dox_find_finder_aho_corasick -Dependencies file "demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_index.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_index.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_find_finder_online.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_find_finder_online.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build.make demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build.make demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/dox/graph_algorithms/all_pairs_shortest_path.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build.make demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/depend +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/dox/graph_algorithms/dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/dox/graph_algorithms/bellman_ford_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/dox/graph_algorithms/breadth_first_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_metaprogramming_switch.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_consensus_consensus_alignment -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/dox/graph_algorithms/depth_first_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dag_shortest_path -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/dox/graph_algorithms/dag_shortest_path.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dijkstra -Consolidate compiler generated dependencies of target demo_dox_gff_io_UNUSED_gff_stream_read +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/dox/graph_algorithms/longest_common_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/depend +make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend +make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/depend +make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/depend +make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/depend +make -f demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build.make demos/CMakeFiles/demo_dox_index_length_countSequences.dir/depend +make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_simple_type_construction.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build.make demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/dox/graph_algorithms/kruskals_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/dox/graph_algorithms/floyd_warshall_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/depend +make -f demos/CMakeFiles/demo_dox_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/dox/graph_algorithms/prims_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/dox/graph_algorithms/longest_increasing_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/dox/graph_types/graph_algo_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_depth_first_search +Consolidate compiler generated dependencies of target demo_dox_gff_io_UNUSED_gff_stream_read +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_breadth_first_search +Dependencies file "demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_dox_find_finder_online +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_bellman_ford_algorithm Consolidate compiler generated dependencies of target demo_dox_find_finder_index -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/dox/graph_algorithms/longest_common_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_basic_zip_iterator.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_floyd_warshall_algorithm -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_all_pairs_shortest_path -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_bed_io_UNUSED_bed_stream_read.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dag_shortest_path make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_ford_fulkerson_algorithm +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_heaviest_increasing_subsequence +Consolidate compiler generated dependencies of target demo_dox_find_finder_aho_corasick make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_find_finder_online.dir/build.make demos/CMakeFiles/demo_dox_find_finder_online.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_depth_first_search -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_breadth_first_search -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_bellman_ford_algorithm -make -f demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build.make demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/dox/graph_algorithms/topological_sort.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build -make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_kruskals_algorithm -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/dox/graph_algorithms/heaviest_increasing_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_consensus_consensus_alignment.dir/build'. +Dependencies file "demos/CMakeFiles/demo_dox_index_maxrepeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/dox/graph_algorithms/transitive_closure.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_common_subsequence -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/dox/graph_algorithms/prims_algorithm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build.make demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_find_finder_index.dir/build.make demos/CMakeFiles/demo_dox_find_finder_index.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build'. -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_index_mums.dir/dox/index/mums.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_length_countSequences.dir/dox/index/length_countSequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_node_predicate.dir/dox/index/node_predicate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_node_predicate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_length_countSequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_mums.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/dox/graph_algorithms/strongly_connected_components.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_mummy.dir/dox/index/mummy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_mummy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/dox/graph_algorithms/longest_increasing_subsequence.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/dox/graph_align/graph_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/depend -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_topological_sort -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_gff_io_UNUSED_gff_stream_read.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_online.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_index.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_all_pairs_shortest_path.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_ford_fulkerson_algorithm make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_index.dir/build'. -make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_find_finder_aho_corasick.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_transitive_closure -Dependencies file "demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/dox/graph_types/graph_algo_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_breadth_first_search.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dag_shortest_path.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/dox/index/UNUSED_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_heaviest_increasing_subsequence +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/dox/index/UNUSED_shape_hash.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_open_save.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_sufarray.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_iterator_short.dir/dox/index/iterator_short.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_bellman_ford_algorithm.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_iterator_short.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/compiler_depend.internal". +[ 27%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm +Dependencies file "demos/CMakeFiles/demo_dox_index_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/depend +[ 27%] Built target demo_dox_find_finder_index +[ 27%] Built target demo_dox_gff_io_UNUSED_gff_stream_read +make -f demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/depend +make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/depend +[ 27%] Built target demo_dox_graph_algorithms_breadth_first_search make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_depth_first_search.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/depend +[ 27%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path +[ 29%] Built target demo_dox_find_finder_online +make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/DependInfo.cmake "--color=" +[ 29%] Built target demo_dox_find_finder_aho_corasick +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" +[ 29%] Built target demo_dox_graph_algorithms_dag_shortest_path +make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/depend +[ 30%] Built target demo_dox_graph_algorithms_depth_first_search +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_floyd_warshall_algorithm +Consolidate compiler generated dependencies of target demo_dox_graph_types_graph_algo_dijkstra +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_dijkstra Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_prims_algorithm -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_strongly_connected_components -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build'. -make -f demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_strongly_connected_components make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/dox/index/begin_atEnd_representative.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/dox/index/UNUSED_shape_hash_next.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_increasing_subsequence Consolidate compiler generated dependencies of target demo_dox_graph_align_graph_align -make -f demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_increasing_subsequence make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build -[ 26%] Built target demo_dox_basic_metaprogramming_switch -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/dox/index/begin_atEnd_representative_bottomUp.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/compiler_depend.internal". -[ 27%] Built target demo_dox_basic_simple_type_construction +Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape_hash make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build'. +make -f demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_ford_fulkerson_algorithm.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_kruskals_algorithm make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build -Consolidate compiler generated dependencies of target demo_dox_graph_types_graph_algo_dijkstra -make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build'. +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_transitive_closure make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_heaviest_increasing_subsequence.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_longest_common_subsequence make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape_hash +make -f demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/dox/index/textAt_indexText_saAt_indexRequire.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape_hash_next -make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_dijkstra.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build +[ 30%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm +Dependencies file "demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/dox/misc/enumerate_strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build +[ 30%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence +Dependencies file "demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/dox/index/supermaxrepeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_floyd_warshall_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target demo_dox_bed_io_UNUSED_bed_stream_read -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_kruskals_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 27%] Built target demo_dox_basic_zip_iterator +make -f demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build +make -f demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/dox/index/counting.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_longest_increasing_subsequence.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_counting.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_counting.dir/compiler_depend.internal". -[ 27%] Built target demo_dox_find_finder_aho_corasick -Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative_bottomUp -[ 27%] Built target demo_dox_consensus_consensus_alignment -make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build.make demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build +make -f demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build.make demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build -make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/depend -make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/depend -[ 27%] Built target demo_dox_graph_algorithms_dag_shortest_path -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build -[ 27%] Built target demo_dox_find_finder_index -make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/depend -[ 29%] Built target demo_dox_find_finder_online -make -f demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build.make demos/CMakeFiles/demo_dox_index_length_countSequences.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_longest_common_subsequence.dir/build'. make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_prims_algorithm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/dox/index/begin_range_goDown_representative_repLength.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 29%] Built target demo_dox_gff_io_UNUSED_gff_stream_read -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/DependInfo.cmake "--color=" -[ 29%] Built target demo_dox_graph_algorithms_all_pairs_shortest_path -make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/DependInfo.cmake "--color=" -[ 29%] Built target demo_dox_graph_algorithms_dijkstra -make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/dox/modifier/cyclic_shape_snippets.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_transitive_closure.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/compiler_depend.internal". -[ 30%] Built target demo_dox_graph_algorithms_depth_first_search -[ 30%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm -[ 30%] Built target demo_dox_graph_algorithms_breadth_first_search -make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/depend -Consolidate compiler generated dependencies of target demo_dox_index_counting -[ 30%] Built target demo_dox_graph_algorithms_kruskals_algorithm -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/DependInfo.cmake "--color=" -[ 30%] Built target demo_dox_graph_algorithms_bellman_ford_algorithm -make -f demos/CMakeFiles/demo_dox_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/depend -[ 30%] Built target demo_dox_graph_algorithms_longest_common_subsequence -make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/depend -make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_strongly_connected_components.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_types_graph_algo_dijkstra.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_align_graph_align.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_atEnd_representative.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_dox_index_maxrepeats +Consolidate compiler generated dependencies of target demo_dox_index_begin_range_goDown_representative_repLength +Consolidate compiler generated dependencies of target demo_dox_index_length_countSequences +Consolidate compiler generated dependencies of target demo_dox_index_begin_atEnd_representative_bottomUp +Consolidate compiler generated dependencies of target demo_dox_index_sufarray +Consolidate compiler generated dependencies of target demo_dox_index_iterator_short +Consolidate compiler generated dependencies of target demo_dox_graph_algorithms_topological_sort +Consolidate compiler generated dependencies of target demo_dox_index_mums +Consolidate compiler generated dependencies of target demo_dox_index_mummy +Consolidate compiler generated dependencies of target demo_dox_index_shape_hash_init +Consolidate compiler generated dependencies of target demo_dox_index_open_save +Consolidate compiler generated dependencies of target demo_dox_index_iterator +Consolidate compiler generated dependencies of target demo_dox_index_node_predicate make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build -Consolidate compiler generated dependencies of target demo_dox_index_begin_range_goDown_representative_repLength -make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/depend -[ 30%] Built target demo_dox_graph_algorithms_topological_sort -[ 30%] Built target demo_dox_graph_algorithms_ford_fulkerson_algorithm -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/dox/index/find_repeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_find_repeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_find_repeats.dir/compiler_depend.internal". -[ 30%] Built target demo_dox_graph_algorithms_transitive_closure -[ 31%] Built target demo_dox_graph_algorithms_prims_algorithm -[ 31%] Built target demo_dox_graph_algorithms_longest_increasing_subsequence -[ 31%] Built target demo_dox_graph_algorithms_strongly_connected_components -[ 31%] Built target demo_dox_graph_algorithms_heaviest_increasing_subsequence -make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/depend -make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/depend -[ 32%] Built target demo_dox_graph_types_graph_algo_dijkstra -make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_mummy.dir/dox/index/mummy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/dox/index/finder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/depend -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_iterator.dir/dox/index/iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/depend -[ 32%] Built target demo_dox_graph_align_graph_align -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_counting.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_finder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_finder.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_mummy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mummy.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build +Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_index_UNUSED_shape_hash_next +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Built target demo_dox_graph_algorithms_dijkstra +make -f demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build.make demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend -[ 32%] Built target demo_dox_index_UNUSED_shape -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_index_find_repeats -Dependencies file "demos/CMakeFiles/demo_dox_index_length_countSequences.dir/dox/index/length_countSequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_iterator_short.dir/dox/index/iterator_short.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_mums.dir/dox/index/mums.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_maxrepeats.dir/dox/index/maxrepeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_index_length_countSequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_length_countSequences.dir/compiler_depend.internal". -[ 32%] Built target demo_dox_index_UNUSED_shape_hash make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_index_node_predicate.dir/dox/index/node_predicate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/dox/index/shape_hash_init.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/compiler_depend.internal". -[ 32%] Built target demo_dox_index_UNUSED_shape_hash_next -[ 32%] Built target demo_dox_index_begin_atEnd_representative -Dependencies file "demos/CMakeFiles/demo_dox_index_iterator_short.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_iterator_short.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_mums.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_mums.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_maxrepeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_maxrepeats.dir/compiler_depend.internal". -[ 32%] Built target demo_dox_index_begin_atEnd_representative_bottomUp -Dependencies file "demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/dox/index/supermaxrepeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_open_save.dir/dox/index/open_save.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_sufarray.dir/dox/index/sufarray.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_index_node_predicate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_node_predicate.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/dox/misc/get_terminal_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_open_save.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_open_save.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/depend -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/dox/misc/enumerate_strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_index_mummy -Dependencies file "demos/CMakeFiles/demo_dox_index_sufarray.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_sufarray.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/dox/index/textAt_indexText_saAt_indexRequire.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_index_iterator -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build +[ 30%] Built target demo_dox_graph_algorithms_kruskals_algorithm +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build.make demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build +Consolidate compiler generated dependencies of target demo_dox_index_counting Consolidate compiler generated dependencies of target demo_dox_index_getOccurrences_getFrequency_range_getFibre -Dependencies file "demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/dox/misc/name_store_cache.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/dox/misc/interval_tree_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build.make demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target demo_dox_index_finder make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_misc_get_terminal_size -Dependencies file "demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/build -make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/build -Consolidate compiler generated dependencies of target demo_dox_index_length_countSequences +make -f demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build.make demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build +Consolidate compiler generated dependencies of target demo_dox_index_find_repeats +make -f demos/CMakeFiles/demo_dox_index_counting.dir/build.make demos/CMakeFiles/demo_dox_index_counting.dir/build +[ 30%] Built target demo_dox_graph_algorithms_floyd_warshall_algorithm make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_find_repeats.dir/build.make demos/CMakeFiles/demo_dox_index_find_repeats.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Built target demo_dox_graph_algorithms_longest_common_subsequence make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/depend -Consolidate compiler generated dependencies of target demo_dox_index_mums +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_graph_algorithms_topological_sort.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_index_finder.dir/build.make demos/CMakeFiles/demo_dox_index_finder.dir/build -Consolidate compiler generated dependencies of target demo_dox_index_iterator_short -Consolidate compiler generated dependencies of target demo_dox_index_maxrepeats -make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_index_supermaxrepeats -Consolidate compiler generated dependencies of target demo_dox_index_node_predicate -Consolidate compiler generated dependencies of target demo_dox_index_shape_hash_init +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape_hash_next.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 30%] Built target demo_dox_graph_algorithms_transitive_closure +[ 30%] Built target demo_dox_graph_align_graph_align +make -f demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build.make demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_index_open_save +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_UNUSED_shape.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_misc_enumerate_strings +[ 31%] Built target demo_dox_graph_algorithms_longest_increasing_subsequence +make -f demos/CMakeFiles/demo_dox_index_iterator.dir/build.make demos/CMakeFiles/demo_dox_index_iterator.dir/build +[ 31%] Built target demo_dox_graph_algorithms_prims_algorithm +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_range_goDown_representative_repLength.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/build +[ 32%] Built target demo_dox_graph_types_graph_algo_dijkstra +make -f demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build.make demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build +make -f demos/CMakeFiles/demo_dox_index_mummy.dir/build.make demos/CMakeFiles/demo_dox_index_mummy.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_begin_atEnd_representative_bottomUp.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_dox_modifier_cyclic_shape_snippets Consolidate compiler generated dependencies of target demo_dox_misc_name_store_cache +Consolidate compiler generated dependencies of target demo_dox_misc_get_terminal_size +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_misc_interval_tree_example +Consolidate compiler generated dependencies of target demo_dox_index_textAt_indexText_saAt_indexRequire +make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_index_supermaxrepeats make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_iterator_short.dir/build.make demos/CMakeFiles/demo_dox_index_iterator_short.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 32%] Built target demo_dox_index_begin_atEnd_representative +Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_index_node_predicate.dir/build.make demos/CMakeFiles/demo_dox_index_node_predicate.dir/build +Consolidate compiler generated dependencies of target demo_dox_misc_enumerate_strings +Consolidate compiler generated dependencies of target demo_dox_modifier_cyclic_shape +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_counting.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 32%] Built target demo_dox_graph_algorithms_strongly_connected_components +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_finder.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_index_sufarray make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_find_repeats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_misc_interval_tree_example make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_mums.dir/build.make demos/CMakeFiles/demo_dox_index_mums.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build.make demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build +[ 32%] Built target demo_dox_index_UNUSED_shape_hash +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_iterator_short.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/dox/modifier/cyclic_shape.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_index_open_save.dir/build.make demos/CMakeFiles/demo_dox_index_open_save.dir/build -Consolidate compiler generated dependencies of target demo_dox_index_textAt_indexText_saAt_indexRequire +Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build.make demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build -[ 32%] Built target demo_dox_index_counting +make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/build make -f demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string.dir/dox/modifier/modified_string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/dox/modifier/modified_string_mod_view.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_index_sufarray.dir/build.make demos/CMakeFiles/demo_dox_index_sufarray.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/dox/modifier/modified_string_nested.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_finder.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_iterator.dir/build'. -Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/dox/modifier/cyclic_shape_snippets.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build.make demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build +make -f demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build.make demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build make -f demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build.make demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_getOccurrences_getFrequency_range_getFibre.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mummy.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_parallel_queue_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mums.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build.make demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_modifier_cyclic_shape -make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_score_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/depend -Consolidate compiler generated dependencies of target demo_dox_parallel_queue_example -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_node_predicate.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_iterator_short.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mummy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build.make demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build +make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build +make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_name_store_cache.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_parallel_splitter_example -[ 33%] Built target demo_dox_index_begin_range_goDown_representative_repLength make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_nested -Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_mod_view make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_get_terminal_size.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_maxrepeats.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_open_save.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build -Consolidate compiler generated dependencies of target demo_dox_modifier_cyclic_shape_snippets make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_mums.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_sufarray.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/dox/sequence/UNUSED_infix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_open_save.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_interval_tree_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_supermaxrepeats.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_length_countSequences.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_misc_enumerate_strings.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_shape_hash_init.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/compiler_depend.internal". +[ 32%] Built target demo_dox_graph_algorithms_topological_sort +[ 32%] Built target demo_dox_index_UNUSED_shape_hash_next +Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string +[ 32%] Built target demo_dox_index_begin_atEnd_representative_bottomUp make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build +[ 32%] Built target demo_dox_index_maxrepeats +[ 32%] Built target demo_dox_index_UNUSED_shape +Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_nested +Consolidate compiler generated dependencies of target demo_dox_modifier_modified_string_mod_view make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build -make -f demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build.make demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_sufarray.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/dox/seeds/seeds_extension.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build -Consolidate compiler generated dependencies of target demo_dox_pipe_pool_sorter -Consolidate compiler generated dependencies of target demo_dox_score_score -make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_index_textAt_indexText_saAt_indexRequire.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build.make demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build +make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/depend +make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/depend +make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_add_seed -make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build -Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_chaining make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_infix -Dependencies file "demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/DependInfo.cmake "--color=" +[ 32%] Built target demo_dox_index_counting +[ 32%] Built target demo_dox_index_mummy make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string_nested.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 33%] Built target demo_dox_index_getOccurrences_getFrequency_range_getFibre +make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/depend +[ 33%] Built target demo_dox_index_find_repeats +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/depend +[ 33%] Built target demo_dox_index_begin_range_goDown_representative_repLength +make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/depend +[ 33%] Built target demo_dox_index_length_countSequences +[ 33%] Built target demo_dox_index_node_predicate make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/depend +[ 34%] Built target demo_dox_index_iterator_short +make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/depend +[ 34%] Built target demo_dox_index_supermaxrepeats +[ 34%] Built target demo_dox_index_textAt_indexText_saAt_indexRequire +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/depend +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/depend +[ 35%] Built target demo_dox_misc_interval_tree_example +[ 33%] Built target demo_dox_misc_enumerate_strings make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_cyclic_shape_snippets.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/depend +make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/depend +[ 35%] Built target demo_dox_index_sufarray make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_modifier_modified_string_mod_view.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build -make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build -Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_suffix -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_prefix -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build -[ 33%] Built target demo_dox_index_iterator -[ 33%] Built target demo_dox_index_mummy -[ 33%] Built target demo_dox_index_find_repeats -Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_extension +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_sequence_container_view_zip -Consolidate compiler generated dependencies of target demo_dox_seq_io_fai_index_example -make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/depend -make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/depend +make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 33%] Built target demo_dox_index_getOccurrences_getFrequency_range_getFibre -make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build -[ 33%] Built target demo_dox_index_finder -[ 33%] Built target demo_dox_index_node_predicate +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/DependInfo.cmake "--color=" +[ 35%] Built target demo_dox_modifier_cyclic_shape make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/DependInfo.cmake "--color=" +[ 35%] Built target demo_dox_index_finder +make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/depend +[ 35%] Built target demo_dox_misc_name_store_cache make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/DependInfo.cmake "--color=" -[ 34%] Built target demo_dox_misc_get_terminal_size +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/DependInfo.cmake "--color=" +[ 35%] Built target demo_dox_index_iterator +[ 36%] Built target demo_dox_index_shape_hash_init make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_score_score.dir/build'. -[ 34%] Built target demo_dox_index_iterator_short -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/DependInfo.cmake "--color=" +[ 36%] Built target demo_dox_index_mums make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/compiler_depend.internal". -[ 34%] Built target demo_dox_index_maxrepeats +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_dox_sequence_segment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_sequence_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/depend -[ 34%] Built target demo_dox_index_sufarray +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Built target demo_dox_index_mums -make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/depend +[ 36%] Built target demo_dox_index_open_save +[ 36%] Built target demo_dox_modifier_cyclic_shape_snippets +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/depend +make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/depend +[ 36%] Built target demo_dox_misc_get_terminal_size +Dependencies file "demos/CMakeFiles/demo_dox_score_score.dir/dox/score/score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_store_store_example.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_parallel_queue_example.dir/dox/parallel/queue_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_parallel_queue_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_queue_example.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/depend -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Built target demo_dox_index_length_countSequences -[ 34%] Built target demo_dox_index_open_save make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/depend -[ 34%] Built target demo_dox_misc_enumerate_strings -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 34%] Built target demo_dox_index_supermaxrepeats -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_sequence_string make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/depend -[ 35%] Built target demo_dox_misc_interval_tree_example -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/DependInfo.cmake "--color=" -[ 36%] Built target demo_dox_index_shape_hash_init -Consolidate compiler generated dependencies of target demo_dox_sequence_segment -[ 36%] Built target demo_dox_index_textAt_indexText_saAt_indexRequire -[ 36%] Built target demo_dox_misc_name_store_cache make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_store_store_example.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_score_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_score_score.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/dox/sequence/UNUSED_infix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/dox/seeds/seeds_add_seed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 36%] Built target demo_dox_modifier_cyclic_shape +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/depend -[ 36%] Built target demo_dox_parallel_queue_example -make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/compiler_depend.internal". +[ 36%] Built target demo_dox_modifier_modified_string +Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_howto_scores_load_score.dir/build.make demos/CMakeFiles/demo_howto_scores_load_score.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build +make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend +[ 37%] Built target demo_dox_modifier_modified_string_nested +Dependencies file "demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/dox/sequence/container_view_zip.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/dox/parallel/splitter_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_dox_sequence_string2.dir/dox/sequence/string2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/compiler_depend.internal". -[ 37%] Built target demo_dox_modifier_modified_string_nested -Dependencies file "demos/CMakeFiles/demo_dox_sequence_string2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/compiler_depend.internal". -[ 37%] Built target demo_dox_modifier_cyclic_shape_snippets -[ 37%] Built target demo_dox_pipe_pool_sorter -[ 37%] Built target demo_dox_modifier_modified_string_mod_view -make -f demos/CMakeFiles/demo_howto_scores_load_score.dir/build.make demos/CMakeFiles/demo_howto_scores_load_score.dir/depend -make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/depend -Dependencies file "demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/depend +[ 37%] Built target demo_dox_modifier_modified_string_mod_view +Dependencies file "demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_string.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/dox/seeds/seeds_chaining.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_string2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/dox/sequence/UNUSED_suffix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_segment.dir/dox/sequence/segment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/dox/seeds/seeds_extension.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_string.dir/dox/sequence/string.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/depend +Consolidate compiler generated dependencies of target demo_dox_score_score +Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_infix +make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_sequence_segment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_segment.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/depend +Consolidate compiler generated dependencies of target demo_dox_parallel_queue_example +Dependencies file "demos/CMakeFiles/demo_dox_sequence_string.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_string.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_stringset.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_sequence_stringset.dir/dox/sequence/stringset.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/dox/statistics/build_markov_model.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_sequence_stringset.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_stringset.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_segment.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/dox/sequence/UNUSED_prefix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/dox/pipe/pool_sorter.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/dox/seq_io/fai_index_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_score_score.dir/build.make demos/CMakeFiles/demo_dox_score_score.dir/build +Dependencies file "demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_parallel_queue_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/depend -Consolidate compiler generated dependencies of target demo_dox_sequence_string2 -[ 37%] Built target demo_dox_sequence_UNUSED_suffix -make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/depend -[ 37%] Built target demo_dox_seeds_seeds_add_seed +Dependencies file "demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/dox/statistics/load_markov_model.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/DependInfo.cmake "--color=" -[ 37%] Built target demo_dox_modifier_modified_string +Dependencies file "demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/depend +Dependencies file "demos/CMakeFiles/demo_dox_store_store_example.dir/dox/store/store_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_store_store_example.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 38%] Built target demo_dox_seeds_seeds_chaining -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/DependInfo.cmake "--color=" -[ 39%] Built target demo_dox_sequence_container_view_zip -make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/build -[ 39%] Built target demo_dox_parallel_splitter_example +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_infix.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_dox_store_store_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_store_store_example.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_score_score.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_statistics_load_markov_model -Consolidate compiler generated dependencies of target demo_dox_sequence_stringset +Dependencies file "demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_custom_file_endings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/depend make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/depend -[ 39%] Built target demo_dox_score_score +Dependencies file "demos/CMakeFiles/demo_howto_scores_init_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/depend -[ 39%] Built target demo_dox_sequence_UNUSED_infix +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_howto_scores_load_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/DependInfo.cmake "--color=" +[ 37%] Built target demo_dox_parallel_queue_example make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_suffix +Consolidate compiler generated dependencies of target demo_dox_sequence_UNUSED_prefix +Consolidate compiler generated dependencies of target demo_dox_pipe_pool_sorter +Consolidate compiler generated dependencies of target demo_dox_parallel_splitter_example make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/depend -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/howto/filter_similar_sequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build -make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_sequence_stringset +Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_add_seed +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build.make demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_chaining +[ 37%] Built target demo_dox_sequence_UNUSED_infix +Consolidate compiler generated dependencies of target demo_dox_sequence_container_view_zip +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build.make demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_dox_statistics_load_markov_model make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/depend -Dependencies file "demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/howto/align_gaps_clipping.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_dox_statistics_build_markov_model -Dependencies file "demos/CMakeFiles/demo_howto_scores_init_score.dir/howto/scores/init_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_store_store_example.dir/dox/store/store_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_store_store_example.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/depend -[ 39%] Built target demo_dox_sequence_UNUSED_prefix -Dependencies file "demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/dox/stream/lexical_cast.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_alignment_align.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align.dir/depend -Dependencies file "demos/CMakeFiles/demo_howto_scores_init_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_init_score.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_howto_custom_file_endings.dir/howto/custom_file_endings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/howto/efficiently_import_sequences.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_dox_store_store_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_store_store_example.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_score_score +Dependencies file "demos/CMakeFiles/demo_howto_using_zip_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_pipe_pool_sorter.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build +Consolidate compiler generated dependencies of target demo_dox_sequence_string make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align.dir/DependInfo.cmake "--color=" -[ 39%] Built target demo_dox_seeds_seeds_extension +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_parallel_splitter_example.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_sequence_segment make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_string2.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build.make demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_seq_io_fai_index_example -Dependencies file "demos/CMakeFiles/demo_howto_custom_file_endings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_custom_file_endings.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_dox_sequence_string2 +Consolidate compiler generated dependencies of target demo_dox_statistics_build_markov_model make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build -make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_prefix.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_dox_seeds_seeds_extension +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build.make demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build.make demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_sequence_segment.dir/build.make demos/CMakeFiles/demo_dox_sequence_segment.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_stringset.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_UNUSED_suffix.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_dox_stream_lexical_cast -make -f demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/depend -Dependencies file "demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/tabix_io/tabix_vcf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_sequence_string.dir/build.make demos/CMakeFiles/demo_dox_sequence_string.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_howto_scores_init_score -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/depend Consolidate compiler generated dependencies of target demo_howto_filter_similar_sequences -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend -Consolidate compiler generated dependencies of target demo_howto_align_gaps_clipping -Dependencies file "demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_dox_seq_io_fai_index_example +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_base +Consolidate compiler generated dependencies of target demo_tabix_io_tabix_vcf +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_basic_code_detailed make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_howto_scores_load_score.dir/howto/scores/load_score.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_dox_store_store_example make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build -[ 39%] Built target demo_dox_sequence_string -make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_howto_scores_load_score.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_scores_load_score.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_basic_code +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_howto_using_zip_iterator.dir/howto/using_zip_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_howto_efficiently_import_sequences +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_add_seed.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_sequence_string2.dir/build.make demos/CMakeFiles/demo_dox_sequence_string2.dir/build +Consolidate compiler generated dependencies of target demo_howto_using_zip_iterator +Consolidate compiler generated dependencies of target demo_dox_store_store_example +Consolidate compiler generated dependencies of target demo_howto_align_gaps_clipping Consolidate compiler generated dependencies of target demo_howto_custom_file_endings +Consolidate compiler generated dependencies of target demo_howto_efficiently_import_sequences +Consolidate compiler generated dependencies of target demo_dox_stream_lexical_cast +Consolidate compiler generated dependencies of target demo_howto_scores_load_score +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_extension.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_howto_using_zip_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_howto_using_zip_iterator.dir/compiler_depend.internal". -[ 39%] Built target demo_dox_sequence_segment -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/tutorial/a_first_example/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/build -Consolidate compiler generated dependencies of target demo_tabix_io_tabix_vcf make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/tutorial/a_first_example/basic_code.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/tutorial/a_first_example/basic_code_detailed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/tutorial/a_first_example/code_encapsulation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/tutorial/a_first_example/example_tags.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build +make -f demos/CMakeFiles/demo_dox_sequence_stringset.dir/build.make demos/CMakeFiles/demo_dox_sequence_stringset.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build.make demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/tutorial/a_first_example/final_result.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/tutorial/a_first_example/example_tempSubclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tags -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_howto_scores_load_score -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_howto_using_zip_iterator -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/tutorial/a_first_example/solution_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tempSubclassing -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/tutorial/a_first_example/solution_4_templateSubclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_segment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/tutorial/a_first_example/example_tags_for_print.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/tutorial/a_first_example/solution_4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_scores_init_score.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_container_view_zip.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/tutorial/a_first_example/solution_3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_string.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_stringset.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seeds_seeds_chaining.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_basic_code +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build.make demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build +make -f demos/CMakeFiles/demo_dox_store_store_example.dir/build.make demos/CMakeFiles/demo_dox_store_store_example.dir/build +make -f demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build.make demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build +make -f demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build.make demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_howto_custom_file_endings.dir/build.make demos/CMakeFiles/demo_howto_custom_file_endings.dir/build +make -f demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build.make demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/tutorial/a_first_example/solution_3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build.make demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/tutorial/a_first_example/solution_5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/tutorial/a_first_example/solution_6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align.dir/tutorial/alignment/align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_seq_io_fai_index_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_code_encapsulation +make -f demos/CMakeFiles/demo_howto_scores_init_score.dir/build.make demos/CMakeFiles/demo_howto_scores_init_score.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_build_markov_model.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_statistics_load_markov_model.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_base -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_basic_code_detailed -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_store_store_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_custom_file_endings.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/tutorial/a_first_example/solution_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_howto_scores_load_score.dir/build.make demos/CMakeFiles/demo_howto_scores_load_score.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_1 make -f demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build.make demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tags_for_print -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_sequence_string2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build'. +make -f demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build.make demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_store_store_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build -[ 39%] Built target demo_dox_sequence_string2 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_sequence_stringset -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_final_result -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/tutorial/alignment/align_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/tutorial/a_first_example/solution_4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_2 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_dox_stream_lexical_cast.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4_templateSubclassing -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_3 -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_align_gaps_clipping.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_custom_file_endings.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_scores_init_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4 -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build make -f demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build -make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tabix_io_tabix_vcf.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build'. -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_efficiently_import_sequences.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_filter_similar_sequences.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_6 -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_5 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_scores_load_score.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_alignment_align -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_statistics_load_markov_model +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_howto_using_zip_iterator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1 -make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4 +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tags_for_print +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_2 +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_code_encapsulation make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_basic_code_detailed.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/tutorial/alphabets/example_bitsPerValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_base.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tags +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_example_tempSubclassing +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_1 +make -f demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build -[ 39%] Built target demo_dox_statistics_build_markov_model -Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_affine_dgs -Consolidate compiler generated dependencies of target demo_tutorial_alignment_align_assignment1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build -make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_matrix -make -f demos/CMakeFiles/demo_tutorial_alignment_align.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_3 +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_final_result +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_bitsPerValue -Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_simple make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_code_encapsulation.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tempSubclassing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_dox_stream_lexical_cast -Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph_assignment1 -make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tags.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build +[ 37%] Built target demo_dox_sequence_UNUSED_suffix +[ 37%] Built target demo_dox_sequence_string2 +[ 37%] Built target demo_dox_parallel_splitter_example +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_final_result.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/tutorial/alphabets/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 37%] Built target demo_dox_sequence_string make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_example_tags_for_print.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 39%] Built target demo_howto_filter_similar_sequences +[ 37%] Built target demo_dox_sequence_segment make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build +[ 37%] Built target demo_dox_sequence_UNUSED_prefix +[ 37%] Built target demo_dox_pipe_pool_sorter +[ 37%] Built target demo_dox_seeds_seeds_add_seed +[ 38%] Built target demo_dox_seeds_seeds_chaining +[ 38%] Built target demo_dox_seq_io_fai_index_example make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build +[ 39%] Built target demo_dox_store_store_example +[ 39%] Built target demo_dox_statistics_build_markov_model +[ 39%] Built target demo_dox_statistics_load_markov_model +[ 39%] Built target demo_howto_filter_similar_sequences +[ 39%] Built target demo_dox_stream_lexical_cast +[ 39%] Built target demo_howto_efficiently_import_sequences +[ 39%] Built target demo_dox_seeds_seeds_extension +[ 39%] Built target demo_howto_align_gaps_clipping +[ 39%] Built target demo_howto_scores_load_score +[ 40%] Built target demo_howto_scores_init_score +[ 40%] Built target demo_dox_sequence_stringset +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/depend +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/depend +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/depend +[ 40%] Built target demo_tabix_io_tabix_vcf +[ 41%] Built target demo_dox_sequence_container_view_zip +[ 41%] Built target demo_howto_custom_file_endings +[ 41%] Built target demo_tutorial_a_first_example_code_encapsulation +make -f demos/CMakeFiles/demo_tutorial_alignment_align.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align.dir/depend +make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1_solution +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align.dir/DependInfo.cmake "--color=" +[ 41%] Built target demo_howto_using_zip_iterator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/depend +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/depend +[ 41%] Built target demo_tutorial_a_first_example_base +[ 41%] Built target demo_tutorial_a_first_example_final_result make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/DependInfo.cmake "--color=" +[ 43%] Built target demo_tutorial_a_first_example_basic_code_detailed +[ 43%] Built target demo_tutorial_a_first_example_example_tags_for_print +[ 43%] Built target demo_tutorial_a_first_example_solution_3 +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/depend +[ 43%] Built target demo_tutorial_a_first_example_example_tags make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/DependInfo.cmake "--color=" +[ 43%] Built target demo_tutorial_a_first_example_basic_code +[ 44%] Built target demo_tutorial_a_first_example_solution_1 +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/DependInfo.cmake "--color=" +[ 44%] Built target demo_tutorial_a_first_example_example_tempSubclassing +[ 44%] Built target demo_tutorial_a_first_example_solution_2 +[ 44%] Built target demo_tutorial_a_first_example_solution_4 +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/depend make -f demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/depend make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/depend make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/depend make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align.dir/tutorial/alignment/align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/depend +make -f demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build.make demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/depend +make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build.make demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/depend -[ 40%] Built target demo_howto_efficiently_import_sequences -[ 40%] Built target demo_tabix_io_tabix_vcf -[ 40%] Built target demo_howto_custom_file_endings -[ 40%] Built target demo_howto_align_gaps_clipping -[ 40%] Built target demo_howto_scores_init_score -[ 41%] Built target demo_dox_store_store_example -[ 41%] Built target demo_howto_scores_load_score +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/tutorial/alignment/scoring_scheme_matrix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/tutorial/alignment/scoring_scheme_affine_dgs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/DependInfo.cmake "--color=" -[ 41%] Built target demo_tutorial_a_first_example_example_tempSubclassing -[ 41%] Built target demo_tutorial_a_first_example_code_encapsulation -make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/depend -[ 41%] Built target demo_tutorial_a_first_example_basic_code +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/tutorial/alignment/align_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/tutorial/a_first_example/solution_4_templateSubclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/depend make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/depend -make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/DependInfo.cmake "--color=" -[ 41%] Built target demo_tutorial_a_first_example_final_result -[ 41%] Built target demo_howto_using_zip_iterator -[ 41%] Built target demo_tutorial_a_first_example_example_tags_for_print +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/tutorial/a_first_example/solution_6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/DependInfo.cmake "--color=" -[ 43%] Built target demo_tutorial_a_first_example_solution_3 -[ 43%] Built target demo_tutorial_a_first_example_solution_1 -make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/depend +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/DependInfo.cmake "--color=" -[ 44%] Built target demo_tutorial_a_first_example_basic_code_detailed +make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/tutorial/alphabets/example_bitsPerValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/tutorial/a_first_example/solution_5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph.dir/tutorial/alignment/graph.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/tutorial/alphabets/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/tutorial/alphabets/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/tutorial/alignment/graph_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/depend +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_affine_dgs +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_matrix +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/tutorial/alignment/scoring_scheme_simple.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/DependInfo.cmake "--color=" -[ 44%] Built target demo_tutorial_a_first_example_example_tags +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_alignment_align +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/DependInfo.cmake "--color=" -[ 44%] Built target demo_tutorial_a_first_example_solution_2 -[ 44%] Built target demo_tutorial_a_first_example_solution_5 -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/depend -[ 44%] Built target demo_tutorial_a_first_example_solution_6 +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_alignment_align_assignment1 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_bitsPerValue +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_alignment_align.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align.dir/build +make -f demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/depend -[ 44%] Built target demo_tutorial_a_first_example_solution_4_templateSubclassing +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/depend -[ 44%] Built target demo_tutorial_alphabets_assignment_1 +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/tutorial/alphabets/example_ordValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/depend -[ 44%] Built target demo_tutorial_alignment_align_assignment1 -[ 44%] Built target demo_tutorial_a_first_example_solution_4 -[ 44%] Built target demo_tutorial_alignment_graph -[ 44%] Built target demo_tutorial_alignment_graph_assignment1 -[ 45%] Built target demo_tutorial_alignment_align -[ 45%] Built target demo_tutorial_a_first_example_base -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/DependInfo.cmake "--color=" -[ 45%] Built target demo_tutorial_alphabets_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/depend -[ 45%] Built target demo_tutorial_alignment_scoring_scheme_matrix +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_align_assignment1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_base.dir/tutorial/basics/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_example_bitsPerValue.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_affine_dgs.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/depend -[ 46%] Built target demo_tutorial_alignment_scoring_scheme_simple +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_basics_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_matrix.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/tutorial/bed_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/depend -[ 46%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs -[ 46%] Built target demo_tutorial_alphabets_example_bitsPerValue +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_basics_strings +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_6 +Consolidate compiler generated dependencies of target demo_tutorial_alignment_scoring_scheme_simple +Consolidate compiler generated dependencies of target demo_tutorial_basics_allocator +Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_4_templateSubclassing +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_ordValue make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/tutorial/alphabets/example_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/tutorial/background_and_motivation/example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/tutorial/alphabets/example_ordValue.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/depend -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/depend +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_size +Consolidate compiler generated dependencies of target demo_tutorial_basics_show_alphabets +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1 +Consolidate compiler generated dependencies of target demo_tutorial_basics_base +Consolidate compiler generated dependencies of target demo_tutorial_a_first_example_solution_5 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_alphabets_example_ordValue -Consolidate compiler generated dependencies of target demo_tutorial_background_and_motivation_example -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/tutorial/basics/show_alphabets.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_base.dir/tutorial/basics/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/tutorial/basics/allocator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/tutorial/basic_techniques/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/tutorial/bed_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_allocator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_allocator.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/tutorial/basics/strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/tutorial/bed_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_basics_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_basics_strings.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/tutorial/bed_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/tutorial/bed_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/tutorial/bed_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_basics_allocator -make -f demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_basic_techniques_base -Dependencies file "demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/tutorial/blast_io/write_assignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_basics_show_alphabets -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 44%] Built target demo_tutorial_alignment_align_assignment1 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_alignment_graph_assignment1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_basics_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_tutorial_alphabets_assignment_1_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/tutorial/blast_io/write_assignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_bed_io_example1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build.make demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/tutorial/file_io_overview/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/tutorial/consensus_alignment/with_positions.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/compiler_depend.internal". +[ 44%] Built target demo_tutorial_alignment_scoring_scheme_matrix +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build +[ 44%] Built target demo_tutorial_alphabets_example_bitsPerValue +Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build.make demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build +make -f demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build.make demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_4_templateSubclassing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution1 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build'. -Consolidate compiler generated dependencies of target demo_tutorial_bed_io_base +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/tutorial/fragment_store/access_aligned_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build.make demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/tutorial/blast_io/read_assignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build.make demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/tutorial/consensus_alignment/with_positions.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_basic_techniques_base +Consolidate compiler generated dependencies of target demo_tutorial_background_and_motivation_example make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/tutorial/file_io_overview/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_basics_strings Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution3 -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_base +Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution1 Consolidate compiler generated dependencies of target demo_tutorial_bed_io_solution2 -Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_blast_io_write_assignment make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_assignment_1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_graph.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 44%] Built target demo_tutorial_alignment_scoring_scheme_affine_dgs +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_6.dir/build'. +Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution3 Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/tutorial/fragment_store/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/tutorial/file_io_overview/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/tutorial/generic_programming/example_hashing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_blast_io_read_assignment -Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_a_first_example_solution_5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/tutorial/consensus_alignment/without_positions.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build.make demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build.make demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_scoring_scheme_simple.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_blast_io_write_assignment -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/compiler_depend.internal". +[ 45%] Built target demo_tutorial_alignment_align make -f demos/CMakeFiles/demo_tutorial_basics_base.dir/build.make demos/CMakeFiles/demo_tutorial_basics_base.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alignment_graph_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/build -make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_assignment_1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/tutorial/generic_programming/template_subclassing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_without_positions make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_example_size.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution2 -Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_with_positions -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution1 -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_example1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_alphabets_example_ordValue.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_template_subclassing -Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_example_hashing -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_background_and_motivation_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_base +Dependencies file "demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basic_techniques_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_hint -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build.make demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build +make -f demos/CMakeFiles/demo_tutorial_basics_strings.dir/build.make demos/CMakeFiles/demo_tutorial_basics_strings.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/tutorial/file_io_overview/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/tutorial/file_io_overview/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_allocator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_show_alphabets.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/tutorial/fragment_store/display_aligned_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/tutorial/fragment_store/access_aligned_reads2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/tutorial/genome_annotations/assignment_1_hint.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/tutorial/genome_annotations/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_basics_strings.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution3 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_4_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_display_aligned_reads -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads2 +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_access_aligned_reads +[ 45%] Built target demo_tutorial_a_first_example_solution_4_templateSubclassing +Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_example_hashing +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_solution +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_hint +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_display_aligned_reads make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_2_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_fragment_store_base +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_example1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_base -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_3_solution -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example1 -make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build -make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_bed_io_solution3.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_generic_programming_template_subclassing make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_file_io_overview_solution2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_blast_io_read_assignment +Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_without_positions make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_base -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution2 -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_algo_scc -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution1 -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_consensus_alignment_with_positions make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build.make demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution3 +[ 45%] Built target demo_tutorial_a_first_example_solution_5 +make -f demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build.make demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build +[ 45%] Built target demo_tutorial_alignment_graph_assignment1 +make -f demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_blast_io_read_assignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build +make -f demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build +[ 46%] Built target demo_tutorial_alignment_scoring_scheme_simple +make -f demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build.make demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_blast_io_write_assignment.dir/build'. -Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example2 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution3.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Built target demo_tutorial_alignment_graph +make -f demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build +make -f demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build.make demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build +[ 46%] Built target demo_tutorial_a_first_example_solution_6 +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build +[ 46%] Built target demo_tutorial_alphabets_assignment_1 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build -make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build'. make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_template_subclassing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_generic_programming_example_hashing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_consensus_alignment_without_positions.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_file_io_overview_example1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_access_aligned_reads2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_consensus_alignment_with_positions.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build -make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Built target demo_tutorial_alphabets_assignment_1_solution +[ 46%] Built target demo_tutorial_alphabets_example_ordValue make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_fragment_store_display_aligned_reads.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 46%] Built target demo_tutorial_basics_base +[ 46%] Built target demo_tutorial_alphabets_example_size +[ 46%] Built target demo_tutorial_basics_allocator +[ 46%] Built target demo_tutorial_basic_techniques_base +[ 46%] Built target demo_tutorial_basics_show_alphabets +[ 46%] Built target demo_tutorial_basics_strings +[ 47%] Built target demo_tutorial_background_and_motivation_example +[ 47%] Built target demo_tutorial_bed_io_example1 +[ 47%] Built target demo_tutorial_file_io_overview_solution1 +[ 47%] Built target demo_tutorial_bed_io_solution2 +[ 47%] Built target demo_tutorial_bed_io_solution3 +[ 47%] Built target demo_tutorial_file_io_overview_solution3 +[ 47%] Built target demo_tutorial_bed_io_solution1 +[ 48%] Built target demo_tutorial_bed_io_base +[ 48%] Built target demo_tutorial_blast_io_read_assignment +[ 48%] Built target demo_tutorial_consensus_alignment_without_positions +[ 48%] Built target demo_tutorial_blast_io_write_assignment +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/depend +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_1_hint.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/depend +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/depend +[ 48%] Built target demo_tutorial_file_io_overview_example1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/DependInfo.cmake "--color=" +[ 48%] Built target demo_tutorial_file_io_overview_solution2 +[ 49%] Built target demo_tutorial_genome_annotations_assignment_1_hint +[ 49%] Built target demo_tutorial_fragment_store_display_aligned_reads +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/depend +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/depend +[ 49%] Built target demo_tutorial_generic_programming_example_hashing +make -f demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 46%] Built target demo_tutorial_basics_allocator -[ 46%] Built target demo_tutorial_alphabets_example_ordValue -[ 47%] Built target demo_tutorial_background_and_motivation_example -[ 47%] Built target demo_tutorial_alphabets_example_size -[ 47%] Built target demo_tutorial_bed_io_solution2 -[ 47%] Built target demo_tutorial_basics_show_alphabets -[ 47%] Built target demo_tutorial_basics_base -[ 47%] Built target demo_tutorial_basics_strings -[ 47%] Built target demo_tutorial_basic_techniques_base -[ 48%] Built target demo_tutorial_bed_io_example1 -[ 48%] Built target demo_tutorial_bed_io_base -[ 48%] Built target demo_tutorial_bed_io_solution1 -make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/depend -[ 48%] Built target demo_tutorial_blast_io_write_assignment -[ 48%] Built target demo_tutorial_bed_io_solution3 -[ 49%] Built target demo_tutorial_consensus_alignment_with_positions +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/DependInfo.cmake "--color=" +[ 50%] Built target demo_tutorial_consensus_alignment_with_positions +[ 50%] Built target demo_tutorial_fragment_store_access_aligned_reads2 +[ 50%] Built target demo_tutorial_genome_annotations_assignment_1_solution make -f demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/depend -[ 49%] Built target demo_tutorial_consensus_alignment_without_positions make -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/depend -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/depend -[ 49%] Built target demo_tutorial_blast_io_read_assignment make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/depend make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/DependInfo.cmake "--color=" +[ 50%] Built target demo_tutorial_fragment_store_base +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/tutorial/genome_annotations/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/compiler_depend.internal". +[ 50%] Built target demo_tutorial_generic_programming_template_subclassing +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/tutorial/genome_annotations/assignment_3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/tutorial/gff_and_gtf_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/compiler_depend.internal". +[ 51%] Built target demo_tutorial_fragment_store_access_aligned_reads +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/depend make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/tutorial/genome_annotations/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/DependInfo.cmake "--color=" -[ 49%] Built target demo_tutorial_file_io_overview_example1 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/depend -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/depend -[ 49%] Built target demo_tutorial_file_io_overview_solution2 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/depend -[ 49%] Built target demo_tutorial_file_io_overview_solution1 +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/DependInfo.cmake "--color=" -[ 50%] Built target demo_tutorial_fragment_store_access_aligned_reads +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/tutorial/genome_annotations/assignment_4_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/DependInfo.cmake "--color=" -[ 50%] Built target demo_tutorial_file_io_overview_solution3 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/depend -[ 51%] Built target demo_tutorial_genome_annotations_assignment_1_hint +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/tutorial/gff_and_gtf_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/DependInfo.cmake "--color=" -[ 51%] Built target demo_tutorial_fragment_store_access_aligned_reads2 -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/tutorial/gff_and_gtf_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/DependInfo.cmake "--color=" -[ 51%] Built target demo_tutorial_fragment_store_display_aligned_reads -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/depend -[ 51%] Built target demo_tutorial_fragment_store_base +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/tutorial/gff_and_gtf_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/depend make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/depend -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/DependInfo.cmake "--color=" -[ 51%] Built target demo_tutorial_generic_programming_example_hashing -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/depend make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/tutorial/graph/graph_hmm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/tutorial/index_iterators/index_bidirectional_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/DependInfo.cmake "--color=" -[ 51%] Built target demo_tutorial_gff_and_gtf_io_example1 make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/depend -[ 51%] Built target demo_tutorial_genome_annotations_assignment_2_solution make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/depend -[ 51%] Built target demo_tutorial_genome_annotations_assignment_3_solution -[ 51%] Built target demo_tutorial_generic_programming_template_subclassing -[ 51%] Built target demo_tutorial_genome_annotations_assignment_1_solution make -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/tutorial/gff_and_gtf_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/depend -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/tutorial/gff_and_gtf_io/example2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/DependInfo.cmake "--color=" -[ 52%] Built target demo_tutorial_gff_and_gtf_io_base -[ 52%] Built target demo_tutorial_genome_annotations_assignment_4_solution -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/tutorial/graph/graph_algo_scc.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/DependInfo.cmake "--color=" -[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution2 -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/depend cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/DependInfo.cmake "--color=" -[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution1 +Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/tutorial/index_iterators/index_property_maps.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/depend +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/depend make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/depend -[ 53%] Built target demo_tutorial_genome_annotations_base -[ 53%] Built target demo_tutorial_graph_graph_algo_scc make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/depend -[ 53%] Built target demo_tutorial_gff_and_gtf_io_example2 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/tutorial/index_iterators/index_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/DependInfo.cmake "--color=" -[ 53%] Built target demo_tutorial_gff_and_gtf_io_solution3 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/depend -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/tutorial/graph/graph_hmm.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/tutorial/graph/graph_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/tutorial/graph/solution_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/tutorial/index_iterators/index_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/tutorial/index_iterators/index_bidirectional_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/tutorial/index_iterators/index_property_maps.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/tutorial/index_iterators/index_preorder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/tutorial/index_iterators/index_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_assignment1 -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/tutorial/index_iterators/index_search2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_hmm +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_base +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_2_solution +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_preorder Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/tutorial/indexed_fasta_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_dijkstra -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_graph_solution_1 -Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_assignment2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_dijkstra make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/tutorial/index_iterators/iterator_solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_3_solution +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_base +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_genome_annotations_assignment_4_solution +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_example2 +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_bidirectional_search -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_property_maps make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/tutorial/indices/fm_index.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_search -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_preorder -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_assignment2 +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/tutorial/index_iterators/iterator_solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/tutorial/indices/find2_index_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/tutorial/index_iterators/iterator_solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/tutorial/indexed_fasta_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build.make demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build Dependencies file "demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution1 -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/tutorial/index_iterators/iterator_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/tutorial/indices/fm_index.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/tutorial/index_iterators/iterator_solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/tutorial/indexed_fasta_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/tutorial/indexed_fasta_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_3_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution2 -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/tutorial/iterators/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/tutorial/iterators/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_search2 -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_indices_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_base +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/tutorial/iterators/sequence_iterator_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_solution2 +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/tutorial/iterators/assignment_4_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/tutorial/iterators/assignment_3_workshop.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_4_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/tutorial/journaled_set/example_journal_string_basic.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_solution1 -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/tutorial/journaled_set/example_online_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_base.dir/tutorial/iterators/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_base.dir/tutorial/indices/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_genome_annotations_assignment_2_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_base.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_example2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/tutorial/iterators/assignment_3_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/tutorial/journaled_set/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_2 -Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_1 -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_1_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_3_workshop_solution -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_1 +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/tutorial/indices/assignment_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/tutorial/indices/assignment_1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_search2 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_gff_and_gtf_io_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_property_maps +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_search make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_graph_dijkstra.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_graph_solution_1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_graph_hmm.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_base +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_assignment2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_2_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_iterators_base make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build Consolidate compiler generated dependencies of target demo_tutorial_indices_find2_index_approx make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_4_workshop_solution -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_journal_string_basic -Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_3_workshop make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build.make demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_index_assignment1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_base -make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_iterators_sequence_iterator_demo -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_solution3 Consolidate compiler generated dependencies of target demo_tutorial_indices_fm_index -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_graph_graph_algo_scc +make -f demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_preorder.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/tutorial/iterators/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build.make demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build +[ 51%] Built target demo_tutorial_genome_annotations_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_bidirectional_search.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_online_search -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_indices_base -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build -make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_solution_1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_gff_and_gtf_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_graph_graph_algo_scc.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_join -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_property_maps.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build +[ 51%] Built target demo_tutorial_genome_annotations_assignment_2_solution +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/tutorial/journaled_set/solution_online_search_assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build.make demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build +[ 51%] Built target demo_tutorial_gff_and_gtf_io_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_3_workshop +Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_3_workshop_solution make -f demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build.make demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment2 -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build -make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_indexed_fasta_io_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_index_iterators_iterator_assignment2 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_base +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_4_workshop_solution +Consolidate compiler generated dependencies of target demo_tutorial_indices_base +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_1 +Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_1_solution +[ 51%] Built target demo_tutorial_genome_annotations_assignment_3_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_online_search_assignment1_hint -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment4 -make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_search2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_iterators_sequence_iterator_demo +Consolidate compiler generated dependencies of target demo_tutorial_indices_assignment_1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_index_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment1 -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build -make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_iterators_base make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_journaled_string_tree_journaled_string_tree_base make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution3.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 51%] Built target demo_tutorial_genome_annotations_assignment_4_solution +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build +make -f demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_fm_index.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_gff_and_gtf_io_base +make -f demos/CMakeFiles/demo_tutorial_indices_base.dir/build.make demos/CMakeFiles/demo_tutorial_indices_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment3 -make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_find2_index_approx.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_index_iterators_iterator_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_iterators_base.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_base.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_gff_and_gtf_io_example2 +make -f demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indexed_fasta_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_assignment_1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_iterators_assignment_2_solution +[ 52%] Built target demo_tutorial_gff_and_gtf_io_example1 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_assignment_2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_4_workshop_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 52%] Built target demo_tutorial_gff_and_gtf_io_solution1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_3_workshop_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_indices_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_sequence_iterator_demo.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_iterators_assignment_2_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 53%] Built target demo_tutorial_index_iterators_index_search -[ 53%] Built target demo_tutorial_graph_solution_1 -[ 53%] Built target demo_tutorial_index_iterators_index_assignment1 -[ 53%] Built target demo_tutorial_index_iterators_index_bidirectional_search +[ 52%] Built target demo_tutorial_graph_graph_dijkstra +[ 53%] Built target demo_tutorial_index_iterators_index_preorder [ 53%] Built target demo_tutorial_graph_graph_hmm -[ 53%] Built target demo_tutorial_graph_graph_dijkstra +[ 53%] Built target demo_tutorial_index_iterators_index_assignment1 [ 53%] Built target demo_tutorial_index_iterators_index_assignment2 -[ 54%] Built target demo_tutorial_index_iterators_index_preorder +[ 53%] Built target demo_tutorial_index_iterators_index_property_maps +[ 53%] Built target demo_tutorial_index_iterators_index_bidirectional_search +[ 54%] Built target demo_tutorial_graph_graph_algo_scc +[ 54%] Built target demo_tutorial_index_iterators_index_search +[ 54%] Built target demo_tutorial_graph_solution_1 +[ 54%] Built target demo_tutorial_index_iterators_index_search2 +[ 54%] Built target demo_tutorial_gff_and_gtf_io_solution2 +[ 55%] Built target demo_tutorial_index_iterators_iterator_solution2 +[ 55%] Built target demo_tutorial_index_iterators_iterator_solution1 +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/depend +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/depend +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/depend +[ 55%] Built target demo_tutorial_indices_find2_index_approx +[ 55%] Built target demo_tutorial_indexed_fasta_io_base +[ 55%] Built target demo_tutorial_index_iterators_iterator_solution3 +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/DependInfo.cmake "--color=" +[ 55%] Built target demo_tutorial_indexed_fasta_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/DependInfo.cmake "--color=" +[ 55%] Built target demo_tutorial_indices_fm_index +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/DependInfo.cmake "--color=" +[ 55%] Built target demo_tutorial_indexed_fasta_io_solution2 +[ 55%] Built target demo_tutorial_indices_base +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/DependInfo.cmake "--color=" +[ 55%] Built target demo_tutorial_indices_assignment_1 +[ 55%] Built target demo_tutorial_iterators_assignment_1_solution +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/depend +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/depend make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/depend make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/depend +[ 56%] Built target demo_tutorial_iterators_assignment_1 +[ 56%] Built target demo_tutorial_index_iterators_iterator_assignment2 +[ 56%] Built target demo_tutorial_iterators_assignment_3_workshop +[ 56%] Built target demo_tutorial_indices_assignment_2 make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/depend -make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/depend +[ 56%] Built target demo_tutorial_iterators_assignment_3_workshop_solution make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/depend -[ 54%] Built target demo_tutorial_indexed_fasta_io_base +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/depend +[ 56%] Built target demo_tutorial_iterators_base +[ 56%] Built target demo_tutorial_iterators_assignment_4_workshop_solution make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/depend -[ 54%] Built target demo_tutorial_index_iterators_index_property_maps -[ 54%] Built target demo_tutorial_index_iterators_iterator_assignment2 -make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/depend +[ 56%] Built target demo_tutorial_iterators_sequence_iterator_demo make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/DependInfo.cmake "--color=" -[ 54%] Built target demo_tutorial_indexed_fasta_io_solution1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/DependInfo.cmake "--color=" -[ 54%] Built target demo_tutorial_index_iterators_iterator_solution1 -[ 54%] Built target demo_tutorial_indexed_fasta_io_solution2 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/DependInfo.cmake "--color=" -[ 55%] Built target demo_tutorial_index_iterators_index_search2 -[ 55%] Built target demo_tutorial_index_iterators_iterator_solution2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/DependInfo.cmake "--color=" -[ 55%] Built target demo_tutorial_indices_assignment_1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/DependInfo.cmake "--color=" +[ 58%] Built target demo_tutorial_iterators_assignment_2_solution make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/depend +[ 58%] Built target demo_tutorial_journaled_set_base +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/depend make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/depend -[ 56%] Built target demo_tutorial_indices_assignment_2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 56%] Built target demo_tutorial_indices_find2_index_approx cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/DependInfo.cmake "--color=" -[ 56%] Built target demo_tutorial_index_iterators_iterator_solution3 -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/depend -[ 56%] Built target demo_tutorial_indices_fm_index -[ 56%] Built target demo_tutorial_iterators_assignment_1 -[ 56%] Built target demo_tutorial_iterators_assignment_1_solution -[ 56%] Built target demo_tutorial_indices_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/depend -[ 56%] Built target demo_tutorial_iterators_sequence_iterator_demo make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/depend -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/depend -[ 58%] Built target demo_tutorial_iterators_assignment_2_solution -[ 58%] Built target demo_tutorial_iterators_assignment_3_workshop_solution -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/DependInfo.cmake "--color=" -[ 58%] Built target demo_tutorial_iterators_assignment_3_workshop -[ 58%] Built target demo_tutorial_iterators_assignment_4_workshop_solution +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/tutorial/journaled_set/example_journal_string_basic.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/DependInfo.cmake "--color=" -[ 58%] Built target demo_tutorial_iterators_base -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/depend -[ 59%] Built target demo_tutorial_journaled_set_example_join -[ 59%] Built target demo_tutorial_journaled_set_base +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/tutorial/journaled_set/example_online_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/DependInfo.cmake "--color=" -[ 59%] Built target demo_tutorial_journaled_set_example_journal_string_basic -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/tutorial/journaled_set/example_join.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/depend make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/DependInfo.cmake "--color=" -[ 59%] Built target demo_tutorial_journaled_set_example_online_search +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/tutorial/modifiers/UNUSED_modcomplementdna.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/depend make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/depend -[ 59%] Built target demo_tutorial_journaled_set_solution_online_search_assignment1 +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/tutorial/journaled_set/solution_online_search_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/DependInfo.cmake "--color=" -[ 59%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint -[ 59%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 -[ 59%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/tutorial/journaled_set/solution_online_search_assignment4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/tutorial/journaled_set/solution_online_search_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/DependInfo.cmake "--color=" -[ 60%] Built target demo_tutorial_journaled_set_solution_online_search_assignment3 -[ 60%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/tutorial/metafunctions/assignment1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/depend -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/tutorial/metafunctions/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/tutorial/journaled_set/solution_online_search_assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/tutorial/modifiers/UNUSED_modcomplementdna.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/tutorial/modifiers/assignment1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/tutorial/modifiers/assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/tutorial/modifiers/modview.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/tutorial/modifiers/modreverse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_assignment1_solution -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/tutorial/multiple_sequence_alignment/assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_base -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/tutorial/modifiers/nested.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/tutorial/multiple_sequence_alignment/consensus.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_UNUSED_modcomplementdna +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1 +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_UNUSED_modcomplementdna +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_journal_string_basic +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_online_search +Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_assignment1_solution +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_assignment1_solution +Consolidate compiler generated dependencies of target demo_tutorial_metafunctions_base Consolidate compiler generated dependencies of target demo_tutorial_modifiers_modview -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_modreverse Consolidate compiler generated dependencies of target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_journaled_string_tree_journaled_string_tree_base +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/tutorial/pairwise_sequence_alignment/assignment5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build -make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_modifiers_nested -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_assignment1 -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_join +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/tutorial/multiple_sequence_alignment/msa.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_msa -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_consensus -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_banded -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 -Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/tutorial/parsing_command_line_arguments/assignment3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/tutorial/parsing_command_line_arguments/assignment2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/tutorial/parsing_command_line_arguments/assignment6_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/tutorial/parsing_command_line_arguments/assignment4_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/tutorial/parsing_command_line_arguments/assignment3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/tutorial/pairwise_sequence_alignment/alignment_local.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/tutorial/parsing_command_line_arguments/assignment4_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_journal_string_basic.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/tutorial/parsing_command_line_arguments/assignment5_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/tutorial/parsing_command_line_arguments/assignment6_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build.make demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_join.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard +make -f demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/tutorial/parsing_command_line_arguments/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_metafunctions_assignment1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment2 +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_nested Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_local -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_banded +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment6_solution +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_assignment1.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_solution_online_search_assignment3 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_assignment1_solution.dir/build'. -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment2_solution -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment3_solution +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example1 -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5 -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_consensus +Consolidate compiler generated dependencies of target demo_tutorial_modifiers_modreverse +Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_assignment1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment4_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/compiler_depend.internal". +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_UNUSED_modcomplementdna.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build'. -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment5_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_metafunctions_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_modview.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build +make -f demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build.make demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build +[ 58%] Built target demo_tutorial_modifiers_assignment1 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_modreverse.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_base -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_solution_online_search_assignment4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_modifiers_nested.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_consensus.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build -make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build'. make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_banded.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_multiple_sequence_alignment_msa +Consolidate compiler generated dependencies of target demo_tutorial_journaled_set_example_online_search_assignment1_hint +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment2_solution +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment3_solution +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment4_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_modifyString -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build -[ 60%] Built target demo_tutorial_metafunctions_assignment1_solution -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_own_function -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_final_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 +make -f demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build.make demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_struct -Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example1_detailed +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment5_solution +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_local +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_assignment6_solution +Consolidate compiler generated dependencies of target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build.make demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build'. -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_multiple_sequence_alignment_msa.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build -[ 61%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target demo_tutorial_journaled_set_example_journal_string_basic +[ 58%] Built target demo_tutorial_journaled_set_solution_online_search_assignment1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_alignment_local.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 +[ 58%] Built target demo_tutorial_journaled_set_example_online_search +[ 58%] Built target demo_tutorial_metafunctions_assignment1_solution +[ 59%] Built target demo_tutorial_journaled_set_example_join make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 59%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build +[ 59%] Built target demo_tutorial_metafunctions_base +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build +make -f demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build.make demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_journaled_set_example_online_search_assignment1_hint.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build +[ 60%] Built target demo_tutorial_modifiers_UNUSED_modcomplementdna +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment3_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step4.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pairwise_sequence_alignment_assignment5_step6.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment2_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_modifiers_modreverse make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment4_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment5_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 61%] Built target demo_tutorial_modifiers_modview make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_assignment6_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/depend +[ 61%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap [ 61%] Built target demo_tutorial_modifiers_assignment1_solution -[ 61%] Built target demo_tutorial_modifiers_assignment1 -[ 61%] Built target demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 -[ 61%] Built target demo_tutorial_metafunctions_base +[ 61%] Built target demo_tutorial_modifiers_modreverse +[ 62%] Built target demo_tutorial_journaled_set_solution_online_search_assignment3 +[ 62%] Built target demo_tutorial_modifiers_modview +[ 62%] Built target demo_tutorial_journaled_set_solution_online_search_assignment4 +[ 62%] Built target demo_tutorial_journaled_set_solution_online_search_assignment2 +[ 62%] Built target demo_tutorial_modifiers_nested +[ 63%] Built target demo_tutorial_multiple_sequence_alignment_assignment1 +[ 63%] Built target demo_tutorial_multiple_sequence_alignment_consensus +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_banded +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard +[ 63%] Built target demo_tutorial_multiple_sequence_alignment_msa +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 +[ 63%] Built target demo_tutorial_journaled_set_example_online_search_assignment1_hint +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 +[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/depend +[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 +[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/depend +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/depend +[ 64%] Built target demo_tutorial_parsing_command_line_arguments_assignment3_solution +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/DependInfo.cmake "--color=" +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment2_solution +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/depend make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/depend -[ 61%] Built target demo_tutorial_modifiers_nested -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/depend -[ 61%] Built target demo_tutorial_multiple_sequence_alignment_consensus +[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment5_solution +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/DependInfo.cmake "--color=" +[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/depend make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/depend -[ 62%] Built target demo_tutorial_multiple_sequence_alignment_assignment1 -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 -[ 62%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_standard -[ 62%] Built target demo_tutorial_multiple_sequence_alignment_msa make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/tutorial/parsing_command_line_arguments/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/compiler_depend.internal". +[ 65%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/compiler_depend.internal". +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment4_solution make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/tutorial/parsing_command_line_arguments/example_with_modifyString.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/depend -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step1 -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_banded -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/depend -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/depend make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/depend -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/DependInfo.cmake "--color=" -[ 63%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/depend -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/tutorial/parsing_command_line_arguments/example_with_own_function.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/tutorial/parsing_command_line_arguments/example1_detailed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/tutorial/parsing_command_line_arguments/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_alignment_local +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/tutorial/parsing_command_line_arguments/example_with_struct.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/depend -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/depend -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step2 -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step3 -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step4 +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/tutorial/parsing_command_line_arguments/final_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_parsing_command_line_arguments_assignment4_solution make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/DependInfo.cmake "--color=" -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step5 -[ 64%] Built target demo_tutorial_parsing_command_line_arguments_assignment5_solution +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/depend -[ 64%] Built target demo_tutorial_pairwise_sequence_alignment_assignment5_step6 -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment2_solution -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment3_solution -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_example_with_modifyString -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/depend -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_assignment6_solution +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/DependInfo.cmake "--color=" -[ 65%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/DependInfo.cmake "--color=" -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_base -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example1 -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/DependInfo.cmake "--color=" -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_final_solution -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/depend -[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example_with_struct make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/depend make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/tutorial/pattern_matching/assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/tutorial/pattern_matching/assignment1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/tutorial/pattern_matching/assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/depend -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/tutorial/pattern_matching/find_index_multiple.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/depend +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/tutorial/pattern_matching/assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/tutorial/pattern_matching/assignment2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/tutorial/pattern_matching/find_approx.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/depend -make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/tutorial/q_gram_index/index_assignment6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/tutorial/q_gram_index/index_assignment5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/tutorial/sam_and_bam_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/tutorial/pattern_matching/find_index.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/tutorial/q_gram_index/index_qgram.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment1_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment1 -Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_modifyString make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/tutorial/sam_and_bam_io/example2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2 -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/tutorial/q_gram_index/index_qgram_hash.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step1.dir/tutorial/realignment/step1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/tutorial/sam_and_bam_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_base Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index_multiple -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_exact -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step1.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2_solution -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step2.dir/tutorial/realignment/step2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_approx -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3_solution -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3 -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_realignment_step2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_realignment_step2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_assignment5 -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example1 +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_struct +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_final_solution +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example1_detailed +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/tutorial/pattern_matching/assignment3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_assignment6 -Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_parsing_command_line_arguments_example_with_own_function +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/tutorial/sam_and_bam_io/example7.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/tutorial/pattern_matching/find_exact.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/tutorial/seed_and_extend/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example2 +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build +make -f demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build.make demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_base -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example7 +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_modifyString.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram_hash -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/tutorial/seed_and_extend/example2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/tutorial/seed_and_extend/example3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/tutorial/sam_and_bam_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build -make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/tutorial/sam_and_bam_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example1_detailed.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution1 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_struct.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/tutorial/seed_and_extend/example4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/tutorial/seed_and_extend/example5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/compiler_depend.internal". -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_example_with_own_function.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_parsing_command_line_arguments_final_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_realignment_step1 -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/tutorial/seed_and_extend/example6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/tutorial/sam_and_bam_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/tutorial/seed_and_extend/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/tutorial/seed_and_extend/solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/compiler_depend.internal". +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_base +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/DependInfo.cmake "--color=" +[ 65%] Built target demo_tutorial_parsing_command_line_arguments_example_with_modifyString +[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example1 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment1_solution +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2_solution +Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram_hash +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_qgram +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_index_multiple +make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/depend make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/tutorial/seed_and_extend/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/tutorial/seed_and_extend/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/tutorial/seed_and_extend/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_approx +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/tutorial/seed_and_extend/example7.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution3 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_realignment_step2 -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/tutorial/seed_and_extend/solution5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/tutorial/seed_and_extend/solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build'. +[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example_with_own_function +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example3 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example1 -Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build +[ 66%] Built target demo_tutorial_parsing_command_line_arguments_final_solution +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example2 +[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example1_detailed make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/tutorial/seed_and_extend/solution6.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/tutorial/seeds/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/compiler_depend.internal". +[ 66%] Built target demo_tutorial_pattern_matching_find_index make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_index_multiple.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_approx.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build +[ 66%] Built target demo_tutorial_parsing_command_line_arguments_example_with_struct +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_base +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_assignment3_solution +Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_assignment5 +Consolidate compiler generated dependencies of target demo_tutorial_pattern_matching_find_exact +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example4 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example5 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example6 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example3 +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example2 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_realignment_step2 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution4 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example1 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_example7 +Consolidate compiler generated dependencies of target demo_tutorial_realignment_step1 Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_sam_and_bam_io_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_q_gram_index_index_assignment6 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution1 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example5 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example7 -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution5 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example4 -make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build +make -f demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build.make demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example6 -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution6 -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/tutorial/sequence_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example7 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution1 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_example2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/tutorial/sequence_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_seeds_example1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_qgram_hash.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build +make -f demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build.make demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build +make -f demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build +make -f demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build.make demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build +[ 66%] Built target demo_tutorial_pattern_matching_assignment3 +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_assignment3_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_pattern_matching_find_exact.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_q_gram_index_index_assignment6.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build -make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution4 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution3 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution6 +Consolidate compiler generated dependencies of target demo_tutorial_seed_and_extend_solution5 +[ 66%] Built target demo_tutorial_pattern_matching_assignment2_solution +Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_example1.dir/tutorial/seeds/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/compiler_depend.internal". +[ 66%] Built target demo_tutorial_pattern_matching_assignment2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_seeds_solution1 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_example1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_realignment_step2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build +[ 66%] Built target demo_tutorial_pattern_matching_find_approx +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_example1 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build'. +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_realignment_step1.dir/build'. +[ 67%] Built target demo_tutorial_pattern_matching_assignment1 +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build +[ 67%] Built target demo_tutorial_pattern_matching_assignment1_solution +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build +[ 67%] Built target demo_tutorial_pattern_matching_find_index_multiple make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_example7.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sam_and_bam_io_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_base +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build +make -f demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build.make demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example4.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example6.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_example7.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution6.dir/build'. @@ -299670,1868 +299678,1899 @@ make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seed_and_extend_solution5.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 67%] Built target demo_tutorial_sam_and_bam_io_base +[ 67%] Built target demo_tutorial_sam_and_bam_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_seeds_example1 +[ 68%] Built target demo_tutorial_pattern_matching_find_exact make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 69%] Built target demo_tutorial_sam_and_bam_io_example7 +make -f demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build +[ 70%] Built target demo_tutorial_q_gram_index_index_qgram +[ 70%] Built target demo_tutorial_q_gram_index_index_assignment6 +[ 70%] Built target demo_tutorial_q_gram_index_index_qgram_hash +[ 70%] Built target demo_tutorial_q_gram_index_index_assignment5 +[ 70%] Built target demo_tutorial_pattern_matching_assignment3_solution +[ 70%] Built target demo_tutorial_realignment_step2 +[ 72%] Built target demo_tutorial_seed_and_extend_example3 +[ 72%] Built target demo_tutorial_sam_and_bam_io_example2 +[ 72%] Built target demo_tutorial_sam_and_bam_io_solution1 +[ 72%] Built target demo_tutorial_seed_and_extend_example4 +[ 72%] Built target demo_tutorial_sam_and_bam_io_solution2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 66%] Built target demo_tutorial_pattern_matching_assignment2 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seeds_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 67%] Built target demo_tutorial_pattern_matching_assignment1 -[ 67%] Built target demo_tutorial_pattern_matching_find_index -[ 67%] Built target demo_tutorial_pattern_matching_assignment2_solution -[ 67%] Built target demo_tutorial_pattern_matching_assignment1_solution -[ 67%] Built target demo_tutorial_pattern_matching_assignment3 +[ 72%] Built target demo_tutorial_seed_and_extend_example2 +[ 72%] Built target demo_tutorial_realignment_step1 +make -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/depend +[ 72%] Built target demo_tutorial_seed_and_extend_example1 +[ 72%] Built target demo_tutorial_seed_and_extend_example5 +make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/depend +[ 73%] Built target demo_tutorial_seed_and_extend_solution3 +make -f demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/depend make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/depend -[ 68%] Built target demo_tutorial_pattern_matching_find_exact -[ 68%] Built target demo_tutorial_pattern_matching_assignment3_solution +[ 73%] Built target demo_tutorial_seed_and_extend_example6 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/depend +[ 73%] Built target demo_tutorial_sam_and_bam_io_solution3 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/depend -[ 68%] Built target demo_tutorial_q_gram_index_index_assignment6 -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/DependInfo.cmake "--color=" -[ 68%] Built target demo_tutorial_pattern_matching_find_index_multiple +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/depend +[ 73%] Built target demo_tutorial_seed_and_extend_example7 +[ 73%] Built target demo_tutorial_seed_and_extend_solution2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/depend -[ 68%] Built target demo_tutorial_q_gram_index_index_assignment5 -[ 69%] Built target demo_tutorial_q_gram_index_index_qgram_hash +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/depend +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 73%] Built target demo_tutorial_seed_and_extend_solution5 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/DependInfo.cmake "--color=" -[ 69%] Built target demo_tutorial_pattern_matching_find_approx -[ 69%] Built target demo_tutorial_realignment_step1 -[ 69%] Built target demo_tutorial_q_gram_index_index_qgram +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/DependInfo.cmake "--color=" -[ 69%] Built target demo_tutorial_realignment_step2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/DependInfo.cmake "--color=" -[ 69%] Built target demo_tutorial_sam_and_bam_io_example1 -[ 69%] Built target demo_tutorial_sam_and_bam_io_base -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/depend -[ 69%] Built target demo_tutorial_sam_and_bam_io_solution2 -[ 69%] Built target demo_tutorial_sam_and_bam_io_example2 -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/depend -[ 70%] Built target demo_tutorial_sam_and_bam_io_example7 -make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/DependInfo.cmake "--color=" +[ 73%] Built target demo_tutorial_seed_and_extend_solution1 +make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/DependInfo.cmake "--color=" +[ 73%] Built target demo_tutorial_seed_and_extend_solution4 +[ 73%] Built target demo_tutorial_seeds_example1 make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/depend -[ 70%] Built target demo_tutorial_sam_and_bam_io_solution1 -[ 70%] Built target demo_tutorial_seed_and_extend_example1 -[ 70%] Built target demo_tutorial_sam_and_bam_io_solution3 +[ 73%] Built target demo_tutorial_seed_and_extend_solution6 +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/tutorial/sequence_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/depend -[ 70%] Built target demo_tutorial_seed_and_extend_example2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/tutorial/sequence_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/DependInfo.cmake "--color=" -[ 70%] Built target demo_tutorial_seed_and_extend_example5 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/DependInfo.cmake "--color=" -[ 72%] Built target demo_tutorial_seed_and_extend_example4 -[ 72%] Built target demo_tutorial_seed_and_extend_example3 -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/tutorial/seeds/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/depend make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/depend -[ 72%] Built target demo_tutorial_seed_and_extend_example7 -[ 72%] Built target demo_tutorial_seed_and_extend_example6 -[ 72%] Built target demo_tutorial_seed_and_extend_solution1 -make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/depend -[ 72%] Built target demo_tutorial_seed_and_extend_solution2 +Dependencies file "demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/depend make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/DependInfo.cmake "--color=" -[ 73%] Built target demo_tutorial_seed_and_extend_solution3 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 73%] Built target demo_tutorial_seed_and_extend_solution6 -[ 73%] Built target demo_tutorial_seed_and_extend_solution5 cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/DependInfo.cmake "--color=" -[ 73%] Built target demo_tutorial_seeds_example1 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/depend +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/DependInfo.cmake "--color=" -[ 73%] Built target demo_tutorial_seed_and_extend_solution4 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/depend -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/depend +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/tutorial/sequences/example_conversions_copy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/tutorial/sequences/example_conversions_move.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/depend -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/DependInfo.cmake "--color=" -[ 73%] Built target demo_tutorial_seeds_solution1 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/depend +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/DependInfo.cmake "--color=" -[ 73%] Built target demo_tutorial_sequence_io_example1 -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" -[ 74%] Built target demo_tutorial_sequence_io_base -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/tutorial/sequence_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/tutorial/sequence_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_example1 +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution4 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/depend make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution1 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/tutorial/sequence_io/solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/tutorial/sequences/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_base.dir/tutorial/sequences/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/tutorial/sequences/assignment_4_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/tutorial/sequences/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/tutorial/sequences/assignment_3_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/tutorial/sequence_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/tutorial/sequences/assignment_3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/tutorial/sequences/assignment_6_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/tutorial/sequences/assignment_5_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/tutorial/sequences/example_conversions_copy.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_sequences_base -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_1_solution -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_4_solution -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution3 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3_solution -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_2_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_1_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/tutorial/sequences/example_functionality1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/tutorial/sequences/example_conversions_move.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/tutorial/sequences/example_functionality2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/tutorial/sequences/example_segments.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution4 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution2 +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/tutorial/sequences_in_depth/example_overflow.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_2_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/tutorial/sequences/example_comparisons.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/tutorial/sequences_in_depth/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_6_solution -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_solution2 -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/tutorial/simple_rna_seq/genequant_assignment1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_5_solution -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/tutorial/simple_rna_seq/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/tutorial/simple_rna_seq/genequant_assignment2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_example1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/tutorial/simple_rna_seq/genequant_assignment5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/tutorial/simple_rna_seq/genequant_solution5.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_copy +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/tutorial/simple_rna_seq/genequant_solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/tutorial/simple_rna_seq/genequant_assignment3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/tutorial/simple_rna_seq/genequant_assignment4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/tutorial/string_sets/assignment_1_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/tutorial/simple_rna_seq/genequant_solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/compiler_depend.internal". +[ 73%] Built target demo_tutorial_sequence_io_solution2 +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/compiler_depend.internal". +[ 73%] Built target demo_tutorial_sequence_io_example1 +Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/DependInfo.cmake "--color=" +[ 73%] Built target demo_tutorial_sequence_io_solution4 +[ 73%] Built target demo_tutorial_sequences_assignment_2_solution +[ 73%] Built target demo_tutorial_sequence_io_solution3 +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/depend +[ 73%] Built target demo_tutorial_sequences_assignment_3 +[ 73%] Built target demo_tutorial_sequence_io_solution1 +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/depend +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/depend +Consolidate compiler generated dependencies of target demo_tutorial_sequences_base +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_3_solution Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_base -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_comparisons -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_segments -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/tutorial/simple_rna_seq/interval_tree.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/tutorial/simple_rna_seq/genequant_solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_example_overflow -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_5_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_4_solution +Consolidate compiler generated dependencies of target demo_tutorial_seeds_solution1 Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality2 -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality1 -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/tutorial/string_sets/assignment_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_copy make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/tutorial/string_sets/assignment_2_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_sequence_io_base +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_base.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build -make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_move make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 74%] Built target demo_tutorial_sequences_assignment_1_solution make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_1_solution.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/depend +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/tutorial/simple_rna_seq/genequant_solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment3 -make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build -make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_2_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_base make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_1_solution -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2 -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution1.dir/build'. +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/tutorial/vcf_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment1 -Dependencies file "demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution1 -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment2 -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment5 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_seeds_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution4.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_base.dir/tutorial/string_sets/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/compiler_depend.internal". +[ 74%] Built target demo_tutorial_sequences_assignment_3_solution +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_3_solution.dir/build'. +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/compiler_depend.internal". +[ 74%] Built target demo_tutorial_sequences_assignment_4_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_comparisons +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment2 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_assignment_6_solution +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_functionality1 +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_segments +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment1 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2 +make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/depend make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/tutorial/string_sets/assignment_3_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/tutorial/string_sets/assignment_4_workshop_solution.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_4_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_sequences_example_conversions_move make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequence_io_solution2.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_example_overflow +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_1_solution +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_base +Consolidate compiler generated dependencies of target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution5 +Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution3 -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/tutorial/string_sets/example_functionality.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_base.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_interval_tree +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_base +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution4 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2_solution +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution2 +make -f demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment3 make -f demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_sequences_example_functionality2 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment5 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_interval_tree +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_comparisons.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_6_solution.dir/build'. +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_assignment4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution5 -make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_2_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_assignment_5_solution.dir/build'. +[ 75%] Built target demo_tutorial_sequences_assignment_5_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution4 +make -f demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution3 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 75%] Built target demo_tutorial_sequences_example_conversions_copy +[ 75%] Built target demo_tutorial_sequences_in_depth_base +[ 75%] Built target demo_tutorial_seeds_solution1 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build'. +[ 76%] Built target demo_tutorial_sequence_io_base +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_segments.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build.make demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 76%] Built target demo_tutorial_sequences_base make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_3_workshop_solution +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_base +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality_2 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_iterators make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_functionality2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_4_workshop_solution +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution2 +Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_3_workshop_solution +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution1 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_base -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_in_depth_base.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_simple_rna_seq_genequant_solution2 -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_assignment_4_workshop_solution make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_conversions_copy.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build +make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_in_depth_example_overflow.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_conversions_move.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build make -f demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_sequences_example_functionality1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment2.dir/build'. -make -f demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment4.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_1_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution3.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_2.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_interval_tree.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_assignment1.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_base.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_2_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution5.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_functionality.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_3_workshop_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution4.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_workflows_knime_node make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_assignment_4_workshop_solution.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_example1 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_alphabet +Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution3 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build +make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build +make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_simple_rna_seq_genequant_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 74%] Built target demo_tutorial_sequence_io_solution4 -[ 74%] Built target demo_tutorial_sequences_base -[ 74%] Built target demo_tutorial_sequence_io_solution1 -[ 74%] Built target demo_tutorial_sequences_assignment_3_solution -[ 74%] Built target demo_tutorial_sequences_assignment_2_solution -[ 74%] Built target demo_tutorial_sequences_example_comparisons -[ 74%] Built target demo_tutorial_sequences_assignment_3 -[ 74%] Built target demo_tutorial_sequences_assignment_4_solution -[ 74%] Built target demo_tutorial_sequence_io_solution2 -[ 75%] Built target demo_tutorial_sequence_io_solution3 -[ 75%] Built target demo_tutorial_sequences_assignment_5_solution -[ 75%] Built target demo_tutorial_sequences_assignment_1_solution -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/depend -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/depend -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/depend +[ 76%] Built target demo_tutorial_sequences_example_comparisons make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 77%] Built target demo_tutorial_sequences_assignment_6_solution -[ 77%] Built target demo_tutorial_sequences_example_functionality2 -make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/depend +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [ 77%] Built target demo_tutorial_sequences_example_conversions_move -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/depend -[ 77%] Built target demo_tutorial_sequences_example_segments -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/depend -make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/DependInfo.cmake "--color=" +[ 77%] Built target demo_tutorial_simple_rna_seq_base [ 77%] Built target demo_tutorial_sequences_in_depth_assignment_exact_generous_solution -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/depend -[ 77%] Built target demo_tutorial_sequences_example_conversions_copy -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/DependInfo.cmake "--color=" +[ 77%] Built target demo_tutorial_sequences_example_segments +[ 77%] Built target demo_tutorial_sequences_example_functionality1 +[ 77%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment2 +[ 78%] Built target demo_tutorial_sequences_in_depth_example_overflow +[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 +[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 +[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 +[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 +[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 +[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/DependInfo.cmake "--color=" -[ 77%] Built target demo_tutorial_sequences_in_depth_base -[ 77%] Built target demo_tutorial_sequences_in_depth_example_overflow -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/DependInfo.cmake "--color=" -[ 77%] Built target demo_tutorial_sequences_example_functionality1 +[ 80%] Built target demo_tutorial_string_sets_example_iterators make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/DependInfo.cmake "--color=" +[ 80%] Built target demo_tutorial_string_sets_assignment_1_solution +[ 80%] Built target demo_tutorial_string_sets_example_functionality +[ 80%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution +[ 80%] Built target demo_tutorial_vcf_io_base +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/depend +[ 80%] Built target demo_tutorial_string_sets_example_functionality_2 +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/DependInfo.cmake "--color=" -[ 78%] Built target demo_tutorial_simple_rna_seq_genequant_solution3 +[ 80%] Built target demo_tutorial_vcf_io_example1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/DependInfo.cmake "--color=" -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment2 -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment4 -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment1 -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/depend -[ 79%] Built target demo_tutorial_simple_rna_seq_base -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment3 -make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/depend -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_solution1 -make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/DependInfo.cmake "--color=" -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_assignment5 -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/DependInfo.cmake "--color=" +[ 80%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/DependInfo.cmake "--color=" -[ 79%] Built target demo_tutorial_string_sets_assignment_3_workshop_solution -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/depend -[ 79%] Built target demo_tutorial_simple_rna_seq_genequant_solution5 +[ 80%] Built target demo_tutorial_vcf_io_solution1 +[ 80%] Built target demo_tutorial_string_sets_assignment_2 +make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/depend -[ 80%] Built target demo_tutorial_string_sets_assignment_2_solution -[ 80%] Built target demo_tutorial_string_sets_assignment_1_solution -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend -[ 80%] Built target demo_tutorial_string_sets_assignment_2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/DependInfo.cmake "--color=" +[ 80%] Built target demo_tutorial_simple_rna_seq_genequant_solution4 +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/DependInfo.cmake "--color=" +[ 80%] Built target demo_tutorial_vcf_io_solution2 +[ 80%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution [ 80%] Built target demo_tutorial_simple_rna_seq_interval_tree -make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/depend +[ 81%] Built target demo_tutorial_workflows_knime_node +[ 81%] Built target demo_tutorial_string_sets_assignment_2_solution +make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/depend +[ 81%] Built target demo_tutorial_string_sets_base +make -f demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/depend +[ 82%] Built target demo_unassigned_or_unused_alphabet +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/depend +[ 82%] Built target demo_tutorial_vcf_io_solution3 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/depend -[ 80%] Built target demo_tutorial_string_sets_base -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/DependInfo.cmake "--color=" -[ 80%] Built target demo_tutorial_string_sets_example_functionality -[ 80%] Built target demo_tutorial_simple_rna_seq_genequant_solution2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/DependInfo.cmake "--color=" -[ 80%] Built target demo_tutorial_string_sets_assignment_4_workshop_solution +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/unassigned_or_unused/benchmark_stream_write.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/unassigned_or_unused/gff2gtf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/tutorial/string_sets/example_functionality_2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/tutorial/string_sets/example_iterators.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/tutorial/vcf_io/base.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/tutorial/vcf_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/unassigned_or_unused/arg_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/unassigned_or_unused/graph_hmm_silent.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/tutorial/workflows/knime_node.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/unassigned_or_unused/alphabet.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/tutorial/vcf_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/tutorial/vcf_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/unassigned_or_unused/bam_library_size.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/DependInfo.cmake "--color=" make -f demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/unassigned_or_unused/index_lcp.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/compiler_depend.internal". make -f demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/depend -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/tutorial/vcf_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/unassigned_or_unused/annotation_converter.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_base -Dependencies file "demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/depend -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_functionality_2 -Consolidate compiler generated dependencies of target demo_tutorial_string_sets_example_iterators -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_alphabet -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution2 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_arg_align -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/unassigned_or_unused/file_readwrite.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/unassigned_or_unused/bamutil.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/unassigned_or_unused/bam_print_alignments.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution1 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/unassigned_or_unused/benchmark_stream.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_example1 -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build.make demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/unassigned_or_unused/file_format.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/unassigned_or_unused/benchmark_stream_write.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build -Consolidate compiler generated dependencies of target demo_tutorial_vcf_io_solution3 -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/unassigned_or_unused/file_speed.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/unassigned_or_unused/filter_sam.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/unassigned_or_unused/gff2gtf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/unassigned_or_unused/find_wild.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_library_size -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_tutorial_workflows_knime_node -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/unassigned_or_unused/graph_hmm_silent.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/unassigned_or_unused/index_find.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_annotation_converter -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_readwrite -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/unassigned_or_unused/index_find_stringset.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/unassigned_or_unused/index_mums.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/unassigned_or_unused/index_node_predicate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/unassigned_or_unused/index_lcp.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_base.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/unassigned_or_unused/index_qgram_counts.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_functionality_2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_alphabet.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_string_sets_example_iterators.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build.make demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build.make demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/unassigned_or_unused/index_mums.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution2.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/unassigned_or_unused/index_qgram_counts.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/unassigned_or_unused/index_supermaxrepeats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_benchmark_stream_write Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/unassigned_or_unused/index_sufarray.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/unassigned_or_unused/segmentalignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/unassigned_or_unused/parse_lm_stellar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/unassigned_or_unused/rooted_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/unassigned_or_unused/seeds.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/unassigned_or_unused/sequence_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/unassigned_or_unused/tutorial_file_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/unassigned_or_unused/soft_to_hard_masking.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_speed Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_print_alignments -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_readwrite +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_annotation_converter +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_filter_sam +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_supermaxrepeats Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bamutil +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_sufarray +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modreverse +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find_stringset +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_gff2gtf make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/unassigned_or_unused/iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_graph_hmm_silent -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_filter_sam -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/unassigned_or_unused/modifier_modview.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/unassigned_or_unused/modifier_modreverse.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_gff2gtf -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/unassigned_or_unused/minimapper.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_format -make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build'. +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_benchmark_stream +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_lcp +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_graph_hmm_silent make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target demo_unassigned_or_unused_find_wild -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_segmentalignment make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modview make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/unassigned_or_unused/parse_lm_stellar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_nested +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_bam_library_size +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_minimapper +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_arg_align +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_mums +make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_iterator Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_qgram_counts make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_solution3.dir/build'. -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build'. +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_benchmark_stream_write make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_vcf_io_example1.dir/build'. +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_qgram_counts -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/unassigned_or_unused/rooted_iterator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_file_format make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_iterator -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modview -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/unassigned_or_unused/modifier_nested.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_find_stringset -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_sufarray -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_lcp -make -f demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_rooted_iterator +make -f demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_node_predicate -make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_mums make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_benchmark_stream +make -f demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_index_supermaxrepeats -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_modreverse -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_tutorial_workflows_knime_node.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_file_readwrite.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_arg_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/unassigned_or_unused/sam2svg.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_file_speed.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bamutil.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bam_library_size.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_bam_print_alignments.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_file_format.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_modifier_nested -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_minimapper +make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_graph_hmm_silent.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_parse_lm_stellar -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_rooted_iterator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_find_wild.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_annotation_converter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_gff2gtf.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build -[ 80%] Built target demo_tutorial_vcf_io_base -[ 81%] Built target demo_tutorial_string_sets_example_iterators make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_filter_sam.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_iterator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_find.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_benchmark_stream_write.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_lcp.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_string_sets_example_functionality_2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_modview.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sam2svg make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_sufarray.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_node_predicate.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_modreverse.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_qgram_counts.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target demo_unassigned_or_unused_file_readwrite +[ 82%] Built target demo_unassigned_or_unused_graph_hmm_silent +[ 82%] Built target demo_unassigned_or_unused_file_speed +[ 82%] Built target demo_unassigned_or_unused_bam_library_size +[ 82%] Built target demo_unassigned_or_unused_arg_align +[ 82%] Built target demo_unassigned_or_unused_bamutil +[ 82%] Built target demo_unassigned_or_unused_bam_print_alignments +[ 82%] Built target demo_unassigned_or_unused_gff2gtf +[ 82%] Built target demo_unassigned_or_unused_index_find +[ 82%] Built target demo_unassigned_or_unused_filter_sam +[ 82%] Built target demo_unassigned_or_unused_annotation_converter +[ 82%] Built target demo_unassigned_or_unused_index_node_predicate +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sam2svg +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_parse_lm_stellar +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sample_seqs +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_seeds +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_soft_to_hard_masking make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_find_stringset.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_supermaxrepeats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_index_mums.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_modifier_nested.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build +[ 83%] Built target demo_unassigned_or_unused_find_wild +make -f demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_minimapper.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/DependInfo.cmake "--color=" +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/depend +[ 84%] Built target demo_unassigned_or_unused_iterator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_rooted_iterator.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 81%] Built target demo_tutorial_vcf_io_example1 -[ 81%] Built target demo_tutorial_vcf_io_solution2 -[ 81%] Built target demo_unassigned_or_unused_annotation_converter -[ 81%] Built target demo_tutorial_workflows_knime_node -[ 81%] Built target demo_unassigned_or_unused_bam_print_alignments -make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/depend -[ 81%] Built target demo_unassigned_or_unused_benchmark_stream_write -[ 82%] Built target demo_unassigned_or_unused_bamutil -[ 82%] Built target demo_unassigned_or_unused_alphabet -make -f demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/depend -[ 82%] Built target demo_tutorial_vcf_io_solution3 -[ 82%] Built target demo_unassigned_or_unused_arg_align -make -f demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/depend -make -f demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/depend -[ 82%] Built target demo_unassigned_or_unused_bam_library_size -make -f demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/depend -[ 82%] Built target demo_tutorial_vcf_io_solution1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/DependInfo.cmake "--color=" -[ 82%] Built target demo_unassigned_or_unused_file_readwrite -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/depend -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target demo_unassigned_or_unused_benchmark_stream -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/depend -[ 83%] Built target demo_unassigned_or_unused_graph_hmm_silent -[ 83%] Built target demo_unassigned_or_unused_file_format -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sam2svg.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/DependInfo.cmake "--color=" -[ 83%] Built target demo_unassigned_or_unused_filter_sam +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/DependInfo.cmake "--color=" +[ 86%] Built target demo_unassigned_or_unused_index_mums +[ 84%] Built target demo_unassigned_or_unused_index_find_stringset +[ 84%] Built target demo_unassigned_or_unused_rooted_iterator +[ 84%] Built target demo_unassigned_or_unused_modifier_nested +[ 84%] Built target demo_unassigned_or_unused_segmentalignment +[ 84%] Built target demo_unassigned_or_unused_index_lcp +[ 84%] Built target demo_unassigned_or_unused_file_format +[ 84%] Built target demo_unassigned_or_unused_index_supermaxrepeats make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/DependInfo.cmake "--color=" -[ 83%] Built target demo_unassigned_or_unused_file_speed -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/depend -[ 83%] Built target demo_unassigned_or_unused_gff2gtf -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/depend -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/depend -[ 84%] Built target demo_unassigned_or_unused_find_wild +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_parse_lm_stellar.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 87%] Built target demo_unassigned_or_unused_modifier_modreverse +[ 87%] Built target demo_unassigned_or_unused_benchmark_stream +[ 84%] Built target demo_unassigned_or_unused_index_qgram_counts +[ 84%] Built target demo_unassigned_or_unused_benchmark_stream_write +[ 84%] Built target demo_unassigned_or_unused_modifier_modview +[ 84%] Built target demo_unassigned_or_unused_index_sufarray +[ 84%] Built target demo_unassigned_or_unused_minimapper make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/depend -[ 84%] Built target demo_unassigned_or_unused_index_find make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/DependInfo.cmake "--color=" -[ 84%] Built target demo_unassigned_or_unused_index_qgram_counts -[ 84%] Built target demo_unassigned_or_unused_index_find_stringset make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/DependInfo.cmake "--color=" -[ 86%] Built target demo_unassigned_or_unused_index_mums -[ 86%] Built target demo_unassigned_or_unused_index_sufarray -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/DependInfo.cmake "--color=" -[ 86%] Built target demo_unassigned_or_unused_index_node_predicate -[ 86%] Built target demo_unassigned_or_unused_index_lcp +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/depend make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/depend -[ 86%] Built target demo_unassigned_or_unused_index_supermaxrepeats make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/depend -[ 86%] Built target demo_unassigned_or_unused_modifier_nested -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/DependInfo.cmake "--color=" -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/DependInfo.cmake "--color=" -[ 87%] Built target demo_unassigned_or_unused_modifier_modreverse -make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/DependInfo.cmake "--color=" -make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/compiler_depend.internal". +[ 88%] Built target demo_unassigned_or_unused_sample_seqs +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/depend +make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/DependInfo.cmake "--color=" -[ 87%] Built target demo_unassigned_or_unused_iterator +make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/DependInfo.cmake "--color=" -make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake "--color=" -make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/DependInfo.cmake "--color=" +make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/depend +make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/casbar.dir/DependInfo.cmake "--color=" -make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/depend -[ 87%] Built target demo_unassigned_or_unused_modifier_modview -make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/four2three.dir/DependInfo.cmake "--color=" -[ 87%] Built target demo_unassigned_or_unused_minimapper -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend +make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/depend +make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/dfi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi/CMakeFiles/dfi.dir/DependInfo.cmake "--color=" -[ 87%] Built target demo_unassigned_or_unused_sam2svg -[ 87%] Built target demo_unassigned_or_unused_parse_lm_stellar -make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/compute_gain.dir/DependInfo.cmake "--color=" -make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona.dir/DependInfo.cmake "--color=" -[ 87%] Built target demo_unassigned_or_unused_rooted_iterator -make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/depend +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend +make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend +make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake "--color=" -make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/DependInfo.cmake "--color=" -make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/depend +[ 88%] Built target demo_unassigned_or_unused_seeds +make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/unassigned_or_unused/sample_seqs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/unassigned_or_unused/segmentalignment.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/compiler_depend.internal". cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/compiler_depend.internal". +[ 88%] Built target demo_unassigned_or_unused_parse_lm_stellar +[ 88%] Built target demo_unassigned_or_unused_soft_to_hard_masking make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/DependInfo.cmake "--color=" -make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/depend +make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/compiler_depend.internal". +[ 88%] Built target demo_unassigned_or_unused_sam2svg +Dependencies file "apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/compiler_depend.internal". +make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/depend +Dependencies file "apps/bs_tools/CMakeFiles/bisar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/unassigned_or_unused/seeds.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/compiler_depend.internal". +make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/compiler_depend.internal". +[ 88%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt/CMakeFiles/insegt.dir/DependInfo.cmake "--color=" +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/compiler_depend.internal". make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/unassigned_or_unused/sequence_length.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/compiler_depend.internal". -make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/unassigned_or_unused/tutorial_file_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/unassigned_or_unused/tutorial_file_io/mmap_string_example.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/unassigned_or_unused/soft_to_hard_masking.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/compiler_depend.internal". -make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/unassigned_or_unused/tutorial_file_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/unassigned_or_unused/tutorial_file_io/stream_compression_formats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/compiler_depend.internal". +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/compiler_depend.internal". +make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/compiler_depend.internal". +make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/depend +make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend +make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/depend +Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/compiler_depend.internal". +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend +make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/unassigned_or_unused/tutorial_sequence/count_generic_characters.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/unassigned_or_unused/tutorial_sequence/count_characters.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/compiler_depend.internal". -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/DependInfo.cmake "--color=" -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/unassigned_or_unused/tutorials_custim_io/parse_blastn.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/unassigned_or_unused/tutorials_custim_io/parse_gff2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/unassigned_or_unused/tutorial_sequence/replace_as.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/DependInfo.cmake "--color=" Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/compiler_depend.internal". -make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/unassigned_or_unused/tutorial_sequence/sequence_all_strings.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/unassigned_or_unused/tutorials_custim_io/example1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sample_seqs -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_example1 -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/unassigned_or_unused/tutorial_sequence/sequence_iterator_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/unassigned_or_unused/tutorials_custim_io/solution1.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_segmentalignment -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/unassigned_or_unused/tutorials_custim_io/solution3.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_count_characters -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_solution1 -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/unassigned_or_unused/tutorials_custim_io/reader_demo.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/DependInfo.cmake "--color=" +Dependencies file "apps/gustaf/CMakeFiles/gustaf.dir/gustaf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/compiler_depend.internal". +Dependencies file "apps/fiona/CMakeFiles/fiona.dir/fiona.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona.dir/compiler_depend.internal". +make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/depend +Dependencies file "apps/gustaf/CMakeFiles/gustaf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/compiler_depend.internal". +Dependencies file "apps/fiona/CMakeFiles/fiona.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona.dir/compiler_depend.internal". Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/unassigned_or_unused/tutorials_custim_io/solution2.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_soft_to_hard_masking -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sequence_length -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/unassigned_or_unused/tutorials_custim_io/solution4.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/compiler_depend.internal". -Dependencies file "apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_replace_as -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake "--color=" +Dependencies file "apps/fiona/CMakeFiles/compute_gain.dir/compute_gain.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/compute_gain.dir/compiler_depend.internal". +make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/DependInfo.cmake "--color=" Dependencies file "apps/bs_tools/CMakeFiles/four2three.dir/four2three.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/four2three.dir/compiler_depend.internal". -Dependencies file "demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -Dependencies file "apps/alf/CMakeFiles/alf.dir/alf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/compiler_depend.internal". +Dependencies file "apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/compiler_depend.internal". +Dependencies file "apps/bs_tools/CMakeFiles/casbar.dir/casbar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/casbar.dir/compiler_depend.internal". +Dependencies file "apps/insegt/CMakeFiles/insegt.dir/insegt.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt/CMakeFiles/insegt.dir/compiler_depend.internal". Dependencies file "apps/dfi/CMakeFiles/dfi.dir/dfi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi/CMakeFiles/dfi.dir/compiler_depend.internal". +Dependencies file "apps/bs_tools/CMakeFiles/four2three.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/four2three.dir/compiler_depend.internal". +Dependencies file "apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/compiler_depend.internal". +make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/depend +Dependencies file "apps/alf/CMakeFiles/alf.dir/alf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/compiler_depend.internal". +Dependencies file "apps/insegt/CMakeFiles/insegt.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt/CMakeFiles/insegt.dir/compiler_depend.internal". +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" +Dependencies file "apps/alf/CMakeFiles/alf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/compiler_depend.internal". +Dependencies file "apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/compiler_depend.internal". +Dependencies file "apps/dfi/CMakeFiles/dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi/CMakeFiles/dfi.dir/compiler_depend.internal". +Dependencies file "apps/bs_tools/CMakeFiles/casbar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/casbar.dir/compiler_depend.internal". +Dependencies file "apps/fiona/CMakeFiles/compute_gain.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/compute_gain.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" +Dependencies file "apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/compiler_depend.internal". +Dependencies file "apps/fiona/CMakeFiles/fiona_illumina.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_genome.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_methylation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_splicing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/compiler_depend.internal". +Dependencies file "apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_simulator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/compiler_depend.internal". +Dependencies file "apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_tests.dir/mason_tests.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/bam2roi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/compiler_depend.internal". +Dependencies file "apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_tests.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_materializer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_frag_sequencing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/compiler_depend.internal". +Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". +Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_variator.dir/mason_variator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/compiler_depend.internal". +Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". +Dependencies file "apps/mason2/CMakeFiles/mason_variator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". +Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_sequence_length make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_example1 -Dependencies file "apps/bs_tools/CMakeFiles/bisar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/bisar.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_seeds -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build +[ 88%] Built target demo_unassigned_or_unused_sequence_length +make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/depend +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/DependInfo.cmake "--color=" +Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_count_characters +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_solution1 Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -make -f demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build -Dependencies file "apps/bs_tools/CMakeFiles/four2three.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/four2three.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_example1 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_reader_demo -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution1 -Dependencies file "apps/alf/CMakeFiles/alf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/alf/CMakeFiles/alf.dir/compiler_depend.internal". -Dependencies file "apps/fiona/CMakeFiles/compute_gain.dir/compute_gain.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/compute_gain.dir/compiler_depend.internal". -Dependencies file "apps/fiona/CMakeFiles/fiona.dir/fiona.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona.dir/compiler_depend.internal". -Dependencies file "apps/dfi/CMakeFiles/dfi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/dfi/CMakeFiles/dfi.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution3 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build -Dependencies file "apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution4 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution2 -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build -Dependencies file "apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/compiler_depend.internal". -Dependencies file "apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build -Dependencies file "apps/fiona/CMakeFiles/compute_gain.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/compute_gain.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/compiler_depend.internal". -Dependencies file "apps/insegt/CMakeFiles/insegt.dir/insegt.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt/CMakeFiles/insegt.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorial_sequence_replace_as +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build -Dependencies file "apps/gustaf/CMakeFiles/gustaf.dir/gustaf.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/compiler_depend.internal". -Dependencies file "apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/compiler_depend.internal". -Dependencies file "apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/compiler_depend.internal". -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/bs_tools/CMakeFiles/casbar.dir/casbar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/casbar.dir/compiler_depend.internal". -Dependencies file "apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/compiler_depend.internal". -Dependencies file "apps/insegt/CMakeFiles/insegt.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/insegt/CMakeFiles/insegt.dir/compiler_depend.internal". -Dependencies file "apps/mason2/CMakeFiles/mason_methylation.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_methylation.dir/compiler_depend.internal". -Dependencies file "apps/mason2/CMakeFiles/mason_genome.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_genome.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/fiona/CMakeFiles/fiona.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona.dir/compiler_depend.internal". -Dependencies file "apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/compiler_depend.internal". -Dependencies file "apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/compiler_depend.internal". -Dependencies file "apps/gustaf/CMakeFiles/gustaf.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/gustaf/CMakeFiles/gustaf.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sample_seqs.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/fiona/CMakeFiles/fiona_illumina.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/fiona/CMakeFiles/fiona_illumina.dir/compiler_depend.internal". -Dependencies file "apps/bs_tools/CMakeFiles/casbar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/bs_tools/CMakeFiles/casbar.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target bisar +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution4 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_generic_characters.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/compiler_depend.internal". +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_count_characters.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_solution1.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 88%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_example1 +Consolidate compiler generated dependencies of target fx_bam_coverage +Consolidate compiler generated dependencies of target dfi +Consolidate compiler generated dependencies of target pair_align_lib +Consolidate compiler generated dependencies of target casbar +Consolidate compiler generated dependencies of target gustaf +Consolidate compiler generated dependencies of target alf +[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 +[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_soft_to_hard_masking.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_sequence_length.dir/build'. +[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_count_characters +Consolidate compiler generated dependencies of target bisar make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_mmap_string_example.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target four2three -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats.dir/build'. -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target fx_bam_coverage -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_segmentalignment.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_example1 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_replace_as.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build +Consolidate compiler generated dependencies of target fx_fastq_stats +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution1 +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_solution3 +Consolidate compiler generated dependencies of target compute_gain +Consolidate compiler generated dependencies of target four2three +Consolidate compiler generated dependencies of target mason_methylation +Consolidate compiler generated dependencies of target roi_plot_thumbnails +Consolidate compiler generated dependencies of target mason_tests +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn +Consolidate compiler generated dependencies of target mason_simulator +Consolidate compiler generated dependencies of target gustaf_mate_joining +Consolidate compiler generated dependencies of target bam2roi +Consolidate compiler generated dependencies of target roi_feature_projection +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target insegt Consolidate compiler generated dependencies of target mason_genome -Consolidate compiler generated dependencies of target alf -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build -Dependencies file "apps/mason2/CMakeFiles/mason_frag_sequencing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build'. +Consolidate compiler generated dependencies of target fiona_illumina make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build -Consolidate compiler generated dependencies of target dfi -Consolidate compiler generated dependencies of target mason_methylation -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo.dir/build'. +Consolidate compiler generated dependencies of target demo_unassigned_or_unused_tutorials_custim_io_reader_demo make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target compute_gain -make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target gustaf_mate_joining -make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/build -make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target fiona make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target fx_fastq_stats -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build'. -make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/build +Consolidate compiler generated dependencies of target mason_materializer +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target mason_splicing +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target mason_variator +Consolidate compiler generated dependencies of target mason_frag_sequencing +Consolidate compiler generated dependencies of target micro_razers make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/build -Dependencies file "apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/compiler_depend.internal". -make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_seeds.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_example1.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build +make -f demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build.make demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build +make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build +make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_gff2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/mason2/CMakeFiles/mason_variator.dir/mason_variator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/compiler_depend.internal". +make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/build +make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/build +make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_parse_blastn.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/mason2/CMakeFiles/mason_materializer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_materializer.dir/compiler_depend.internal". -make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution4.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution3.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target gustaf +make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/build +make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/build +make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution2.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_reader_demo.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/mason2/CMakeFiles/mason_variator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_variator.dir/compiler_depend.internal". +make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build -Consolidate compiler generated dependencies of target mason_frag_sequencing -Consolidate compiler generated dependencies of target casbar -Consolidate compiler generated dependencies of target fiona_illumina -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/four2three.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build +make[3]: Nothing to be done for 'apps/alf/CMakeFiles/alf.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build +make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/bisar.dir/build'. +make[3]: Nothing to be done for 'demos/CMakeFiles/demo_unassigned_or_unused_tutorials_custim_io_solution1.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/alf/CMakeFiles/alf.dir/build'. +make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/compute_gain.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build -Consolidate compiler generated dependencies of target fiona +make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/build +make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/gustaf/CMakeFiles/gustaf.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/compute_gain.dir/build'. +make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/bisar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_genome.dir/build'. +make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/four2three.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target mason_materializer +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/dfi/CMakeFiles/dfi.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/insegt/CMakeFiles/insegt.dir/build'. -Consolidate compiler generated dependencies of target mason_variator make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_methylation.dir/build'. +make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/casbar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/dfi/CMakeFiles/dfi.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/build +make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build +make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/build +make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build'. +make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build'. +make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona_illumina.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/build +make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/build +make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/gustaf/CMakeFiles/gustaf.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_genome.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target demo_unassigned_or_unused_sample_seqs +make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/build +make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build +make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/bs_tools/CMakeFiles/casbar.dir/build'. -[ 88%] Built target demo_unassigned_or_unused_soft_to_hard_masking +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_methylation.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target demo_unassigned_or_unused_segmentalignment make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target demo_unassigned_or_unused_sequence_length -make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona_illumina.dir/build'. +make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_mmap_string_example -[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_example1 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_materializer.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_tests.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_simulator.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_variator.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_splicing.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_stream_compression_formats -[ 89%] Built target demo_unassigned_or_unused_tutorial_file_io_solution1 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 -make[3]: Nothing to be done for 'apps/fiona/CMakeFiles/fiona.dir/build'. +make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_materializer.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_iterator_demo -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_count_characters -make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/depend -make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_count_generic_characters -make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/depend -[ 89%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'apps/micro_razers/CMakeFiles/micro_razers.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake "--color=" +make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/DependInfo.cmake "--color=" -[ 90%] Built target four2three -[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/bam2roi.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +[ 90%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings +[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 +[ 90%] Built target demo_unassigned_or_unused_tutorial_sequence_replace_as [ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_blastn -[ 90%] Built target demo_unassigned_or_unused_seeds -[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 -[ 91%] Built target demo_unassigned_or_unused_tutorial_sequence_sequence_all_strings -[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 -make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/depend -[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution2 +[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 [ 91%] Built target alf -[ 92%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution1 -make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend -make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/depend -[ 92%] Built target bisar -make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend -[ 92%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake "--color=" -make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake "--color=" +[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution4 +[ 91%] Built target mason_methylation +[ 90%] Built target demo_unassigned_or_unused_tutorials_custim_io_solution3 +[ 91%] Built target bisar +[ 91%] Built target demo_unassigned_or_unused_tutorials_custim_io_parse_gff2 make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/DependInfo.cmake "--color=" -[ 92%] Built target insegt +[ 91%] Built target casbar +[ 92%] Built target four2three +[ 92%] Built target fiona_illumina +[ 92%] Built target gustaf +[ 92%] Built target demo_unassigned_or_unused_tutorials_custim_io_reader_demo make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend -make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake "--color=" -[ 92%] Built target gustaf_mate_joining make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/DependInfo.cmake "--color=" +make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend +[ 92%] Built target dfi +[ 92%] Built target compute_gain +[ 92%] Built target gustaf_mate_joining make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend +[ 92%] Built target fiona +[ 93%] Built target mason_variator make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/depend -[ 93%] Built target mason_frag_sequencing make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/depend -[ 93%] Built target compute_gain make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/depend -[ 93%] Built target mason_methylation -[ 93%] Built target dfi -make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend +[ 93%] Built target mason_genome [ 93%] Built target fx_bam_coverage -[ 93%] Built target casbar -make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" +[ 93%] Built target fx_fastq_stats +make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend +[ 93%] Built target demo_unassigned_or_unused_tutorials_custim_io_example1 +[ 93%] Built target insegt make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/DependInfo.cmake "--color=" -make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/depend -[ 94%] Built target mason_variator +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake "--color=" +make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/DependInfo.cmake "--color=" -[ 94%] Built target gustaf -[ 94%] Built target fx_fastq_stats -make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/depend -make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/DependInfo.cmake "--color=" -[ 94%] Built target fiona_illumina -[ 94%] Built target mason_genome +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/DependInfo.cmake "--color=" +Dependencies file "apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/compiler_depend.internal". +Dependencies file "apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/compiler_depend.internal". +Dependencies file "apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/compiler_depend.internal". +Dependencies file "apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/compiler_depend.internal". +Dependencies file "apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/compiler_depend.internal". +Dependencies file "apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/compiler_depend.internal". +Dependencies file "apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/compiler_depend.internal". +Dependencies file "apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/compiler_depend.internal". +Dependencies file "apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/compiler_depend.internal". +Dependencies file "apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/compiler_depend.internal". +make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/depend +make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/depend +make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend make -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/depend -[ 94%] Built target mason_materializer make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep/CMakeFiles/rep_sep.dir/DependInfo.cmake "--color=" -Dependencies file "apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/compiler_depend.internal". make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/depend -[ 94%] Built target fiona make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak/CMakeFiles/sak.dir/DependInfo.cmake "--color=" make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/depend -Dependencies file "apps/mason2/CMakeFiles/mason_splicing.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_splicing.dir/compiler_depend.internal". make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/depend -Dependencies file "apps/mason2/CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/compiler_depend.internal". make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/depend -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/depend -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat/CMakeFiles/samcat.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_search.dir/DependInfo.cmake "--color=" make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/depend make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/depend -Dependencies file "apps/mason2/CMakeFiles/mason_simulator.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_simulator.dir/compiler_depend.internal". -Dependencies file "apps/mason2/CMakeFiles/mason_tests.dir/mason_tests.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/compiler_depend.internal". make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/depend make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/depend +Dependencies file "apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/compiler_depend.internal". +Dependencies file "apps/razers/CMakeFiles/razers.dir/razers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/compiler_depend.internal". +Dependencies file "apps/rabema/CMakeFiles/rabema_do_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/compiler_depend.internal". +Dependencies file "apps/razers3/CMakeFiles/razers3_simulate_reads.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/compiler_depend.internal". +Dependencies file "apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/compiler_depend.internal". +Dependencies file "apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/compiler_depend.internal". +Dependencies file "apps/rabema/CMakeFiles/rabema_evaluate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_mapper.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2 /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/DependInfo.cmake "--color=" -Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake "--color=" -Dependencies file "apps/mason2/CMakeFiles/mason_tests.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/mason2/CMakeFiles/mason_tests.dir/compiler_depend.internal". -Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". -Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar/CMakeFiles/stellar.dir/DependInfo.cmake "--color=" +Dependencies file "apps/rabema/CMakeFiles/rabema_prepare_sam.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/compiler_depend.internal". +Dependencies file "apps/param_chooser/CMakeFiles/param_chooser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar/CMakeFiles/stellar.dir/DependInfo.cmake "--color=" -Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/bam2roi.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep/CMakeFiles/rep_sep.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat/CMakeFiles/samcat.dir/DependInfo.cmake "--color=" +Dependencies file "apps/razers/CMakeFiles/razers.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon/CMakeFiles/tree_recon.dir/DependInfo.cmake "--color=" -Dependencies file "apps/micro_razers/CMakeFiles/micro_razers.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers/CMakeFiles/micro_razers.dir/compiler_depend.internal". -Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_indexer.dir/DependInfo.cmake "--color=" -Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_mapper.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target mason_splicing -Dependencies file "apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/compiler_depend.internal". -Dependencies file "apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/compiler_depend.internal". -Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". -Dependencies file "apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/compiler_depend.internal". -Dependencies file "apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/compiler_depend.internal". -Dependencies file "apps/ngs_roi/CMakeFiles/bam2roi.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/bam2roi.dir/compiler_depend.internal". -Dependencies file "apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build -Dependencies file "apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target mason_tests -Consolidate compiler generated dependencies of target mason_simulator -Dependencies file "apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/compiler_depend.internal". -Dependencies file "apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/compiler_depend.internal". -Dependencies file "apps/param_chooser/CMakeFiles/param_chooser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/param_chooser.dir/compiler_depend.internal". -Dependencies file "apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/compiler_depend.internal". -Dependencies file "apps/rabema/CMakeFiles/rabema_prepare_sam.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/build -Dependencies file "apps/rabema/CMakeFiles/rabema_evaluate.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_evaluate.dir/compiler_depend.internal". -Dependencies file "apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/compiler_depend.internal". -Dependencies file "apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/compiler_depend.internal". -Dependencies file "apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/compiler_depend.internal". -make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/build -Dependencies file "apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/compiler_depend.internal". -Dependencies file "apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target micro_razers +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_search.dir/DependInfo.cmake "--color=" +Dependencies file "apps/razers3/CMakeFiles/razers3_quality2prob.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/compiler_depend.internal". +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak/CMakeFiles/sak.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon/CMakeFiles/tree_recon.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake "--color=" +Dependencies file "apps/razers3/CMakeFiles/razers3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/compiler_depend.internal". +Dependencies file "apps/yara/CMakeFiles/yara_indexer.dir/indexer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_indexer.dir/compiler_depend.internal". +Dependencies file "apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/compiler_depend.internal". +Dependencies file "apps/stellar/CMakeFiles/stellar.dir/stellar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar/CMakeFiles/stellar.dir/compiler_depend.internal". +Dependencies file "apps/yara/CMakeFiles/yara_mapper.dir/mapper.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_mapper.dir/compiler_depend.internal". Dependencies file "apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep/CMakeFiles/rep_sep.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target pair_align_lib -Dependencies file "apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/compiler_depend.internal". -Dependencies file "apps/razers/CMakeFiles/razers.dir/razers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/compiler_depend.internal". +Dependencies file "apps/searchjoin/CMakeFiles/s4_join.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/compiler_depend.internal". +Dependencies file "apps/stellar/CMakeFiles/stellar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar/CMakeFiles/stellar.dir/compiler_depend.internal". +Dependencies file "apps/yara/CMakeFiles/yara_indexer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_indexer.dir/compiler_depend.internal". Dependencies file "apps/sak/CMakeFiles/sak.dir/sak.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak/CMakeFiles/sak.dir/compiler_depend.internal". -Dependencies file "apps/rabema/CMakeFiles/rabema_do_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rabema/CMakeFiles/rabema_do_search.dir/compiler_depend.internal". -Dependencies file "apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/compiler_depend.internal". -Dependencies file "apps/razers3/CMakeFiles/razers3_simulate_reads.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target roi_plot_thumbnails -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build -make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/build +Dependencies file "apps/yara/CMakeFiles/yara_mapper.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_mapper.dir/compiler_depend.internal". Dependencies file "apps/rep_sep/CMakeFiles/rep_sep.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/rep_sep/CMakeFiles/rep_sep.dir/compiler_depend.internal". -Dependencies file "apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat/CMakeFiles/samcat.dir/compiler_depend.internal". Dependencies file "apps/sak/CMakeFiles/sak.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak/CMakeFiles/sak.dir/compiler_depend.internal". -Dependencies file "apps/razers3/CMakeFiles/razers3_quality2prob.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3_quality2prob.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/searchjoin/CMakeFiles/s4_search.dir/search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_search.dir/compiler_depend.internal". -Dependencies file "apps/razers/CMakeFiles/razers.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers/CMakeFiles/razers.dir/compiler_depend.internal". -Dependencies file "apps/razers3/CMakeFiles/razers3.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers3/CMakeFiles/razers3.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target rabema_prepare_sam -Dependencies file "apps/sam2matrix/CMakeFiles/sam2matrix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target param_chooser -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_splicing.dir/build'. -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_tests.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Dependencies file "apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/compiler_depend.internal". -Dependencies file "apps/samcat/CMakeFiles/samcat.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat/CMakeFiles/samcat.dir/compiler_depend.internal". -Dependencies file "apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_funcs_param_chooser -Consolidate compiler generated dependencies of target rabema_evaluate -make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build +Dependencies file "apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat/CMakeFiles/samcat.dir/compiler_depend.internal". Dependencies file "apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/sgip/CMakeFiles/sgip.dir/sgip.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build +Dependencies file "apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/compiler_depend.internal". +Dependencies file "apps/splazers/CMakeFiles/splazers.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/compiler_depend.internal". +Dependencies file "apps/searchjoin/CMakeFiles/s4_search.dir/search.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_search.dir/compiler_depend.internal". Dependencies file "apps/tree_recon/CMakeFiles/tree_recon.dir/tree_recon.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon/CMakeFiles/tree_recon.dir/compiler_depend.internal". +Dependencies file "apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_app.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/compiler_depend.internal". +Dependencies file "apps/samcat/CMakeFiles/samcat.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/samcat/CMakeFiles/samcat.dir/compiler_depend.internal". +Dependencies file "apps/sgip/CMakeFiles/sgip.dir/sgip.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/compiler_depend.internal". +Dependencies file "apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/compiler_depend.internal". +Dependencies file "apps/sgip/CMakeFiles/sgip.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/compiler_depend.internal". +Dependencies file "apps/snp_store/CMakeFiles/snp_store.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/compiler_depend.internal". +Dependencies file "apps/sam2matrix/CMakeFiles/sam2matrix.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sam2matrix/CMakeFiles/sam2matrix.dir/compiler_depend.internal". +Dependencies file "apps/tree_recon/CMakeFiles/tree_recon.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon/CMakeFiles/tree_recon.dir/compiler_depend.internal". Dependencies file "apps/searchjoin/CMakeFiles/s4_search.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_search.dir/compiler_depend.internal". -make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/build +Dependencies file "apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_options.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/compiler_depend.internal". +Dependencies file "apps/seqcons2/CMakeFiles/seqcons2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/compiler_depend.internal". Dependencies file "apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/compiler_depend.internal". +Dependencies file "apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/compiler_depend.internal". +[ 94%] Built target roi_plot_thumbnails +[ 95%] Built target pair_align_lib +[ 94%] Built target mason_splicing +[ 96%] Built target mason_frag_sequencing +[ 94%] Built target bam2roi +[ 96%] Built target roi_feature_projection +[ 94%] Built target mason_simulator +[ 94%] Built target mason_materializer +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/depend +Consolidate compiler generated dependencies of target razers3_simulate_reads +Consolidate compiler generated dependencies of target param_chooser +Consolidate compiler generated dependencies of target rabema_do_search +Consolidate compiler generated dependencies of target sgip Consolidate compiler generated dependencies of target rabema_build_gold_standard -Dependencies file "apps/splazers/CMakeFiles/splazers.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/splazers/CMakeFiles/splazers.dir/compiler_depend.internal". +[ 94%] Built target mason_tests +Consolidate compiler generated dependencies of target rabema_evaluate +Consolidate compiler generated dependencies of target stellar +Consolidate compiler generated dependencies of target samcat +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/stellar/CMakeFiles/stellar.dir/stellar.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar/CMakeFiles/stellar.dir/compiler_depend.internal". -make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/build -Dependencies file "apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_app.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target roi_feature_projection -Consolidate compiler generated dependencies of target bam2roi make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target rabema_do_search -Dependencies file "apps/sgip/CMakeFiles/sgip.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sgip/CMakeFiles/sgip.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target razers3_simulate_reads -make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build -Dependencies file "apps/searchjoin/CMakeFiles/s4_join.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/searchjoin/CMakeFiles/s4_join.dir/compiler_depend.internal". -Dependencies file "apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/compiler_depend.internal". +[ 94%] Built target micro_razers +make -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/mason2/CMakeFiles/mason_simulator.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/tree_recon/CMakeFiles/tree_recon.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/tree_recon/CMakeFiles/tree_recon.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target rep_sep -make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/build -make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build'. +make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/build +Consolidate compiler generated dependencies of target sam2matrix make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target razers3_quality2prob +make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build +make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/build make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/build +make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build +make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/build +make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target sam2matrix -make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/build -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_evaluate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build -Consolidate compiler generated dependencies of target razers -make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/build +make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/samcat/CMakeFiles/samcat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target samcat make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/sam2matrix/CMakeFiles/sam2matrix.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/param_chooser/CMakeFiles/param_chooser.dir/build'. -make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/build make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/micro_razers/CMakeFiles/micro_razers.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_do_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target s4_search -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_evaluate.dir/build'. +make[3]: Nothing to be done for 'apps/sgip/CMakeFiles/sgip.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build'. +make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target razers3 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build'. +make[3]: Nothing to be done for 'apps/stellar/CMakeFiles/stellar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Dependencies file "apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/compiler_depend.internal". +Dependencies file "apps/pair_align/CMakeFiles/pair_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/compiler_depend.internal". +[ 97%] Built target sgip +[ 97%] Built target rabema_do_search +Consolidate compiler generated dependencies of target s4_search +Consolidate compiler generated dependencies of target rep_sep +Consolidate compiler generated dependencies of target sak +Consolidate compiler generated dependencies of target rabema_prepare_sam +Consolidate compiler generated dependencies of target tree_recon +Consolidate compiler generated dependencies of target pair_align make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/yara/CMakeFiles/yara_mapper.dir/mapper.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_mapper.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target yara_mapper make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/build -Dependencies file "apps/yara/CMakeFiles/yara_indexer.dir/indexer.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_indexer.dir/compiler_depend.internal". make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target s4_join +Consolidate compiler generated dependencies of target razers3_quality2prob +Consolidate compiler generated dependencies of target razers +[ 97%] Built target rabema_evaluate +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build +Consolidate compiler generated dependencies of target yara_indexer +make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/build +[ 97%] Built target sam2matrix +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target seqan_tcoffee Consolidate compiler generated dependencies of target splazers -make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/build -make -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/bam2roi.dir/build'. +[ 97%] Built target param_chooser +Consolidate compiler generated dependencies of target razers3 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_do_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_quality2prob.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/sam2matrix/CMakeFiles/sam2matrix.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_options.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/compiler_depend.internal". -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/rep_sep/CMakeFiles/rep_sep.dir/build'. +Consolidate compiler generated dependencies of target test_funcs_param_chooser +Consolidate compiler generated dependencies of target seqcons2 make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target sak -Dependencies file "apps/stellar/CMakeFiles/stellar.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar/CMakeFiles/stellar.dir/compiler_depend.internal". -[ 94%] Built target mason_tests -Dependencies file "apps/yara/CMakeFiles/yara_mapper.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_mapper.dir/compiler_depend.internal". +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build +Consolidate compiler generated dependencies of target snp_store +make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/build +[ 97%] Built target razers3_simulate_reads +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/build +make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/build +make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/build +make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/build +make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build +[ 97%] Built target stellar make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_search.dir/build'. +make[3]: Nothing to be done for 'apps/sak/CMakeFiles/sak.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/seqcons2/CMakeFiles/seqcons2.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/seqcons2/CMakeFiles/seqcons2.dir/compiler_depend.internal". -[ 94%] Built target mason_splicing -Dependencies file "apps/snp_store/CMakeFiles/snp_store.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/snp_store/CMakeFiles/snp_store.dir/compiler_depend.internal". -[ 94%] Built target mason_simulator make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/samcat/CMakeFiles/samcat.dir/build'. +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build +make[3]: Nothing to be done for 'apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tree_recon +make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/build make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/build -Consolidate compiler generated dependencies of target seqan_tcoffee -Consolidate compiler generated dependencies of target s4_join make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/razers/CMakeFiles/razers.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Dependencies file "apps/yara/CMakeFiles/yara_indexer.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara/CMakeFiles/yara_indexer.dir/compiler_depend.internal". -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target sgip make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target rabema_prepare_sam +make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build -make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build +make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' +make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/build +make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/build +[ 97%] Built target samcat +make[3]: Nothing to be done for 'apps/rep_sep/CMakeFiles/rep_sep.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target pair_align_lib -make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/build -[ 96%] Built target param_chooser -Consolidate compiler generated dependencies of target yara_mapper -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/depend -Consolidate compiler generated dependencies of target stellar -[ 96%] Built target micro_razers make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/seqan2-2.4.0+dfsg /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake "--color=" -[ 96%] Built target bam2roi +make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_join.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/build +make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build +[ 97%] Built target rabema_build_gold_standard make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/splazers/CMakeFiles/splazers.dir/build'. +make[3]: Nothing to be done for 'apps/razers3/CMakeFiles/razers3_quality2prob.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/sak/CMakeFiles/sak.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/build -[ 96%] Built target rabema_do_search -[ 96%] Built target roi_plot_thumbnails -[ 96%] Built target rabema_evaluate -Consolidate compiler generated dependencies of target seqcons2 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/tree_recon/CMakeFiles/tree_recon.dir/build'. -[ 96%] Built target test_funcs_param_chooser -[ 96%] Built target rabema_build_gold_standard make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/sgip/CMakeFiles/sgip.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target snp_store -[ 97%] Built target roi_feature_projection -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/searchjoin/CMakeFiles/s4_join.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target yara_indexer -make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/build -[ 97%] Built target samcat -[ 97%] Built target s4_search -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/build +make[3]: Nothing to be done for 'apps/snp_store/CMakeFiles/snp_store.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target rep_sep -make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/build -[ 97%] Built target razers3_simulate_reads -[ 97%] Built target razers3_quality2prob -[ 97%] Built target sam2matrix -[ 97%] Built target razers3 make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/yara/CMakeFiles/yara_mapper.dir/build'. +make[3]: Nothing to be done for 'apps/pair_align/CMakeFiles/pair_align.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/stellar/CMakeFiles/stellar.dir/build'. +make[3]: Nothing to be done for 'apps/splazers/CMakeFiles/splazers.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target razers make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'apps/seqcons2/CMakeFiles/seqcons2.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' @@ -301539,36 +301578,33 @@ make[3]: Nothing to be done for 'apps/yara/CMakeFiles/yara_indexer.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/snp_store/CMakeFiles/snp_store.dir/build'. +make[3]: Nothing to be done for 'apps/yara/CMakeFiles/yara_mapper.dir/build'. make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target seqan_tcoffee -[ 97%] Built target sak -[ 98%] Built target sgip -[ 98%] Built target splazers -Dependencies file "apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/compiler_depend.internal". +[ 98%] Built target rabema_prepare_sam +[ 98%] Built target sak +[ 98%] Built target razers +[ 98%] Built target razers3_quality2prob +[ 98%] Built target razers3 +[ 98%] Built target test_funcs_param_chooser +[ 98%] Built target pair_align +[ 98%] Built target seqan_tcoffee +[ 98%] Built target rep_sep +[ 98%] Built target snp_store [ 98%] Built target tree_recon +[ 98%] Built target splazers [100%] Built target yara_mapper -Dependencies file "apps/pair_align/CMakeFiles/pair_align.dir/link.d" is newer than depends file "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align/CMakeFiles/pair_align.dir/compiler_depend.internal". -[100%] Built target stellar +[ 98%] Built target seqcons2 [100%] Built target s4_join -[100%] Built target seqcons2 -Consolidate compiler generated dependencies of target pair_align +[100%] Built target s4_search [100%] Built target yara_indexer -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Built target snp_store -make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build -make[3]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'apps/pair_align/CMakeFiles/pair_align.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' -[100%] Built target pair_align make[2]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' dh_auto_test - cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 + cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j40 +/usr/bin/ctest --force-new-ctest-process --verbose -j42 UpdateCTestConfiguration from :/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu @@ -301819,6 +301855,18 @@ 40: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_basic_iterator 40: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/basic 40: Test timeout computed to be: 10000000 +test 41 + Start 41: test_test_bed_io + +41: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_bed_io +41: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io +41: Test timeout computed to be: 10000000 +test 42 + Start 42: test_blast + +42: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_blast +42: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast +42: Test timeout computed to be: 10000000 1: TEST SUITE test_align 1: SEQAN_ENABLE_DEBUG == 1 1: SEQAN_ENABLE_TESTING == 1 @@ -302250,6 +302298,30 @@ 2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +2: ************************************** +2: Total Tests: 48 +2: Skipped: 0 +2: Errors: 0 +2: ************************************** 3: TEST SUITE tests 3: SEQAN_ENABLE_DEBUG == 1 3: SEQAN_ENABLE_TESTING == 1 @@ -302258,6 +302330,56 @@ 3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +3: ************************************** +3: Total Tests: 48 +3: Skipped: 0 +3: Errors: 0 +3: ************************************** 4: TEST SUITE tests 4: SEQAN_ENABLE_DEBUG == 1 4: SEQAN_ENABLE_TESTING == 1 @@ -302265,6 +302387,57 @@ 4: SEQAN_ASYNC_IO == 1 4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +4: ************************************** +4: Total Tests: 48 +4: Skipped: 0 +4: Errors: 0 +4: ************************************** 5: TEST SUITE tests 5: SEQAN_ENABLE_DEBUG == 1 5: SEQAN_ENABLE_TESTING == 1 @@ -302304,11 +302477,69 @@ 6: SEQAN_ENABLE_TESTING == 1 6: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 6: SEQAN_ASYNC_IO == 1 +6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +6: ************************************** +6: Total Tests: 24 +6: Skipped: 0 +6: Errors: 0 +6: ************************************** 7: TEST SUITE tests 7: SEQAN_ENABLE_DEBUG == 1 7: SEQAN_ENABLE_TESTING == 1 7: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 7: SEQAN_ASYNC_IO == 1 +7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +7: ************************************** +7: Total Tests: 24 +7: Skipped: 0 +7: Errors: 0 +7: ************************************** 8: TEST SUITE tests 8: SEQAN_ENABLE_DEBUG == 1 8: SEQAN_ENABLE_TESTING == 1 @@ -302336,11 +302567,45 @@ 9: SEQAN_ENABLE_TESTING == 1 9: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 9: SEQAN_ASYNC_IO == 1 +9: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +9: ************************************** +9: Total Tests: 12 +9: Skipped: 0 +9: Errors: 0 +9: ************************************** 10: TEST SUITE tests 10: SEQAN_ENABLE_DEBUG == 1 10: SEQAN_ENABLE_TESTING == 1 10: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 10: SEQAN_ASYNC_IO == 1 +10: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +10: ************************************** +10: Total Tests: 12 +10: Skipped: 0 +10: Errors: 0 +10: ************************************** 11: TEST SUITE tests 11: SEQAN_ENABLE_DEBUG == 1 11: SEQAN_ENABLE_TESTING == 1 @@ -302348,11 +302613,31 @@ 11: SEQAN_ASYNC_IO == 1 11: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK 11: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +11: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +11: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +11: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +11: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +11: ************************************** +11: Total Tests: 6 +11: Skipped: 0 +11: Errors: 0 +11: ************************************** 12: TEST SUITE tests 12: SEQAN_ENABLE_DEBUG == 1 12: SEQAN_ENABLE_TESTING == 1 12: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 12: SEQAN_ASYNC_IO == 1 +12: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +12: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +12: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +12: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +12: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +12: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +12: ************************************** +12: Total Tests: 6 +12: Skipped: 0 +12: Errors: 0 +12: ************************************** 13: TEST SUITE tests 13: SEQAN_ENABLE_DEBUG == 1 13: SEQAN_ENABLE_TESTING == 1 @@ -302369,6 +302654,22 @@ 13: Skipped: 0 13: Errors: 0 13: ************************************** +14: TEST SUITE test_align_extend +14: SEQAN_ENABLE_DEBUG == 1 +14: SEQAN_ENABLE_TESTING == 1 +14: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +14: SEQAN_ASYNC_IO == 1 +14: test_align_extend_simple OK +14: test_align_extend_simple_infixes_recomp OK +14: test_align_extend_banded OK +14: test_align_extend_xdrop OK +14: test_align_extend_xdrop_banded OK +14: test_align_extend_semiglobal OK +14: ************************************** +14: Total Tests: 6 +14: Skipped: 0 +14: Errors: 0 +14: ************************************** 15: TEST SUITE test_align_parallel_data_structures 15: SEQAN_ENABLE_DEBUG == 1 15: SEQAN_ENABLE_TESTING == 1 @@ -302376,6 +302677,65 @@ 15: SEQAN_ASYNC_IO == 1 15: test_align_parallel_wavefront_task_scheduler_construct OK 15: test_align_parallel_wavefront_task_scheduler_async OK +15: test_align_parallel_wavefront_alignment_scheduler_construct OK +15: test_align_parallel_wavefront_alignment_scheduler_async OK +15: test_align_parallel_wavefront_alignment_scheduler_async_with_exception OK +15: test_align_parallel_intermediate_dp_result_construct OK +15: test_align_parallel_intermediate_dp_result_update_max OK +15: test_align_parallel_intermediate_dp_result_clear OK +15: test_align_parallel_wavefront_alignment_thread_local_storage_construt OK +15: test_align_parallel_wavefront_alignment_thread_local_storage_cache OK +15: test_align_parallel_wavefront_alignment_thread_local_storage_intermediate OK +15: ************************************** +15: Total Tests: 11 +15: Skipped: 0 +15: Errors: 0 +15: ************************************** +16: TEST SUITE tests +16: SEQAN_ENABLE_DEBUG == 1 +16: SEQAN_ENABLE_TESTING == 1 +16: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +16: SEQAN_ASYNC_IO == 1 +16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: TEST SUITE tests +17: SEQAN_ENABLE_DEBUG == 1 +17: SEQAN_ENABLE_TESTING == 1 +17: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +17: SEQAN_ASYNC_IO == 1 +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: TEST SUITE tests +18: SEQAN_ENABLE_DEBUG == 1 +18: SEQAN_ENABLE_TESTING == 1 +18: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +18: SEQAN_ASYNC_IO == 1 +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK 19: TEST SUITE test_align_parallel_algorithm 19: SEQAN_ENABLE_DEBUG == 1 19: SEQAN_ENABLE_TESTING == 1 @@ -302411,6 +302771,29 @@ 22: Skipped: 0 22: Errors: 0 22: ************************************** +23: TEST SUITE test_align_split +23: SEQAN_ENABLE_DEBUG == 1 +23: SEQAN_ENABLE_TESTING == 1 +23: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +23: SEQAN_ASYNC_IO == 1 +23: test_align_split_overlapping_reads_in_reference_align_unbanded OK +23: test_align_split_overlapping_contigs_in_reference_align_unbanded OK +23: test_align_split_insertion_in_reference_align_unbanded OK +23: test_align_split_overlapping_reads_in_reference_gaps_unbanded OK +23: test_align_split_overlapping_contigs_in_reference_gaps_unbanded OK +23: test_align_split_insertion_in_reference_gaps_unbanded OK +23: test_align_split_overlapping_reads_in_reference_align_banded OK +23: test_align_split_overlapping_contigs_in_reference_align_banded OK +23: test_align_split_insertion_in_reference_align_banded OK +23: test_align_split_overlapping_reads_in_reference_gaps_banded OK +23: test_align_split_overlapping_contigs_in_reference_gaps_banded OK +23: test_align_split_insertion_in_reference_gaps_banded OK +23: test_align_split_issue_1679 OK +23: ************************************** +23: Total Tests: 13 +23: Skipped: 0 +23: Errors: 0 +23: ************************************** 24: TEST SUITE test_alignment_free 24: SEQAN_ENABLE_DEBUG == 1 24: SEQAN_ENABLE_TESTING == 1 @@ -302502,6 +302885,31 @@ 25: Skipped: 0 25: Errors: 0 25: ************************************** +26: TEST SUITE test_arg_parse +26: SEQAN_ENABLE_DEBUG == 1 +26: SEQAN_ENABLE_TESTING == 1 +26: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +26: SEQAN_ASYNC_IO == 1 +26: test_path_availability OK +26: test_delete_version_files OK +26: test_create_files OK +26: test_option_on OK +26: test_delete_version_files OK +26: test_option_off OK +26: test_delete_version_files OK +26: test_smaller_seqan_version OK +26: test_delete_version_files OK +26: test_delete_version_files OK +26: test_smaller_app_version OK +26: test_delete_version_files OK +26: test_greater_app_version OK +26: test_delete_version_files OK +26: test_time_out OK +26: ************************************** +26: Total Tests: 15 +26: Skipped: 0 +26: Errors: 0 +26: ************************************** 27: TEST SUITE test_bam_io 27: SEQAN_ENABLE_DEBUG == 1 27: SEQAN_ENABLE_TESTING == 1 @@ -302596,6 +303004,19 @@ 27: test_bam_io_bam_read_header OK 27: test_bam_io_bam_read_alignment OK 27: test_bam_io_bam_write_header OK +27: test_bam_io_bam_write_alignment OK +27: test_bam_io_bam_file_isOpen_fileIn OK +27: test_bam_io_bam_file_isOpen_fileOut OK +27: test_bam_io_bam_file_sam_file_size OK +27: test_bam_io_bam_file_sam_read_header OK +27: test_bam_io_bam_file_sam_read_records OK +27: test_bam_io_bam_file_sam_write_header OK +27: test_bam_io_bam_file_sam_write_records OK +27: test_bam_io_bam_file_bam_file_size OK +27: test_bam_io_bam_file_bam_read_header OK +27: test_bam_io_bam_file_bam_read_records OK +27: test_bam_io_bam_file_bam_read_ex1 OK +27: test_bam_io_bam_file_bam_write_header OK 28: TEST SUITE test_basic_exception 28: SEQAN_ENABLE_DEBUG == 1 28: SEQAN_ENABLE_TESTING == 1 @@ -302756,27 +303177,29 @@ 32: Skipped: 0 32: Errors: 0 32: ************************************** - 1/414 Test #1: test_test_align ................................................................... Passed 0.09 sec - 2/414 Test #5: test_test_align_simd_global_variable_length ....................................... Passed 0.08 sec - 3/414 Test #8: test_test_align_simd_local_equal_length ........................................... Passed 0.08 sec - 4/414 Test #13: test_test_align_simd_local_variable_length_avx2_host .............................. Passed 0.05 sec - 5/414 Test #22: test_test_align_profile ........................................................... Passed 0.04 sec - 6/414 Test #29: test_test_basic_metaprogramming ................................................... Passed 0.02 sec - 7/414 Test #30: test_test_basic_fundamental ....................................................... Passed 0.02 sec - 8/414 Test #31: test_test_basic_concept ........................................................... Passed 0.02 sec - 9/414 Test #32: test_test_basic_alphabet .......................................................... Passed 0.02 sec -test 41 - Start 41: test_test_bed_io - -41: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_bed_io -41: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/bed_io -41: Test timeout computed to be: 10000000 -test 42 - Start 42: test_blast - -42: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_blast -42: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/blast -42: Test timeout computed to be: 10000000 + 1/414 Test #1: test_test_align ................................................................... Passed 0.61 sec + 2/414 Test #2: test_test_align_simd_global_equal_length .......................................... Passed 0.60 sec + 3/414 Test #3: test_test_align_simd_global_equal_length_sse4_host ................................ Passed 0.59 sec + 4/414 Test #4: test_test_align_simd_global_equal_length_avx2_host ................................ Passed 0.58 sec + 5/414 Test #5: test_test_align_simd_global_variable_length ....................................... Passed 0.57 sec + 6/414 Test #6: test_test_align_simd_global_variable_length_sse4_host ............................. Passed 0.55 sec + 7/414 Test #7: test_test_align_simd_global_variable_length_avx2_host ............................. Passed 0.55 sec + 8/414 Test #8: test_test_align_simd_local_equal_length ........................................... Passed 0.54 sec + 9/414 Test #9: test_test_align_simd_local_equal_length_sse4_host ................................. Passed 0.53 sec + 10/414 Test #10: test_test_align_simd_local_equal_length_avx2_host ................................. Passed 0.52 sec + 11/414 Test #11: test_test_align_simd_local_variable_length ........................................ Passed 0.50 sec + 12/414 Test #12: test_test_align_simd_local_variable_length_sse4_host .............................. Passed 0.48 sec + 13/414 Test #13: test_test_align_simd_local_variable_length_avx2_host .............................. Passed 0.45 sec + 14/414 Test #14: test_test_align_extend ............................................................ Passed 0.43 sec + 15/414 Test #15: test_align_parallel_data_structures ............................................... Passed 0.41 sec + 16/414 Test #22: test_test_align_profile ........................................................... Passed 0.30 sec + 17/414 Test #23: test_test_align_split ............................................................. Passed 0.29 sec + 18/414 Test #25: test_test_arg_parse ............................................................... Passed 0.25 sec + 19/414 Test #28: test_test_basic_exception ......................................................... Passed 0.22 sec + 20/414 Test #29: test_test_basic_metaprogramming ................................................... Passed 0.21 sec + 21/414 Test #30: test_test_basic_fundamental ....................................................... Passed 0.20 sec + 22/414 Test #31: test_test_basic_concept ........................................................... Passed 0.19 sec + 23/414 Test #32: test_test_basic_alphabet .......................................................... Passed 0.18 sec test 43 Start 43: test_test_consensus @@ -302819,46 +303242,113 @@ 49: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_msa 49: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_msa 49: Test timeout computed to be: 10000000 -2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -2: ************************************** -2: Total Tests: 48 -2: Skipped: 0 -2: Errors: 0 -2: ************************************** -3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -11: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -11: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -11: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -11: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -11: ************************************** -11: Total Tests: 6 -11: Skipped: 0 -11: Errors: 0 -11: ************************************** - 10/414 Test #25: test_test_arg_parse ............................................................... Passed 0.05 sec - 11/414 Test #28: test_test_basic_exception ......................................................... Passed 0.04 sec +test 50 + Start 50: test_test_graph_types_property_map + +50: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_property_map +50: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types +50: Test timeout computed to be: 10000000 +test 51 + Start 51: test_test_graph_types_derived + +51: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_derived +51: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types +51: Test timeout computed to be: 10000000 +test 52 + Start 52: test_test_graph_types_iterators + +52: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_iterators +52: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types +52: Test timeout computed to be: 10000000 +test 53 + Start 53: test_test_graph_types_types + +53: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_types +53: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types +53: Test timeout computed to be: 10000000 +test 54 + Start 54: test_test_graph_types_utils + +54: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_utils +54: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types +54: Test timeout computed to be: 10000000 +test 55 + Start 55: test_test_index_creation + +55: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_creation +55: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +55: Test timeout computed to be: 10000000 +test 56 + Start 56: test_test_index_crosscompare_char + +56: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_char +56: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +56: Test timeout computed to be: 10000000 +test 57 + Start 57: test_test_index_crosscompare_char_dfi + +57: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_char_dfi +57: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +57: Test timeout computed to be: 10000000 +test 58 + Start 58: test_test_index_crosscompare_dna + +58: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_dna +58: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +58: Test timeout computed to be: 10000000 +test 59 + Start 59: test_test_index_crosscompare_dna_dfi + +59: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_dna_dfi +59: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +59: Test timeout computed to be: 10000000 +test 60 + Start 60: test_test_index_qgram + +60: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_qgram +60: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +60: Test timeout computed to be: 10000000 +test 61 + Start 61: test_test_index_sa_bwtwalk + +61: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_sa_bwtwalk +61: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +61: Test timeout computed to be: 10000000 +test 62 + Start 62: test_test_index_shapes + +62: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_shapes +62: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +62: Test timeout computed to be: 10000000 +test 63 + Start 63: test_test_index_drawing + +63: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_drawing +63: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +63: Test timeout computed to be: 10000000 +test 64 + Start 64: test_test_index_fm_rank_dictionary + +64: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm_rank_dictionary +64: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +64: Test timeout computed to be: 10000000 +test 65 + Start 65: test_test_index_fm_sparse_string + +65: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm_sparse_string +65: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +65: Test timeout computed to be: 10000000 +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK + 24/414 Test #26: test_test_arg_parse_version_check ................................................. Passed 0.49 sec +27: test_bam_io_bam_file_bam_write_records OK 33: TEST SUITE test_basic_aggregate 33: SEQAN_ENABLE_DEBUG == 1 33: SEQAN_ENABLE_TESTING == 1 @@ -302959,57 +303449,7 @@ 33: Skipped: 0 33: Errors: 0 33: ************************************** - 12/414 Test #33: test_test_basic_aggregate ......................................................... Passed 0.04 sec -23: TEST SUITE test_align_split -23: SEQAN_ENABLE_DEBUG == 1 -23: SEQAN_ENABLE_TESTING == 1 -23: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -23: SEQAN_ASYNC_IO == 1 -23: test_align_split_overlapping_reads_in_reference_align_unbanded OK -23: test_align_split_overlapping_contigs_in_reference_align_unbanded OK -23: test_align_split_insertion_in_reference_align_unbanded OK -23: test_align_split_overlapping_reads_in_reference_gaps_unbanded OK -23: test_align_split_overlapping_contigs_in_reference_gaps_unbanded OK -23: test_align_split_insertion_in_reference_gaps_unbanded OK -23: test_align_split_overlapping_reads_in_reference_align_banded OK -23: test_align_split_overlapping_contigs_in_reference_align_banded OK -23: test_align_split_insertion_in_reference_align_banded OK -23: test_align_split_overlapping_reads_in_reference_gaps_banded OK -23: test_align_split_overlapping_contigs_in_reference_gaps_banded OK -23: test_align_split_insertion_in_reference_gaps_banded OK -23: test_align_split_issue_1679 OK -23: ************************************** -23: Total Tests: 13 -23: Skipped: 0 -23: Errors: 0 -23: ************************************** -14: TEST SUITE test_align_extend -14: SEQAN_ENABLE_DEBUG == 1 -14: SEQAN_ENABLE_TESTING == 1 -14: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -14: SEQAN_ASYNC_IO == 1 -14: test_align_extend_simple OK -18: TEST SUITE tests -18: SEQAN_ENABLE_DEBUG == 1 -18: SEQAN_ENABLE_TESTING == 1 -18: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -18: SEQAN_ASYNC_IO == 1 -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: TEST SUITE tests -17: SEQAN_ENABLE_DEBUG == 1 -17: SEQAN_ENABLE_TESTING == 1 -17: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -17: SEQAN_ASYNC_IO == 1 -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: TEST SUITE tests -16: SEQAN_ENABLE_DEBUG == 1 -16: SEQAN_ENABLE_TESTING == 1 -16: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -16: SEQAN_ASYNC_IO == 1 -16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK + 25/414 Test #33: test_test_basic_aggregate ......................................................... Passed 0.42 sec 34: TEST SUITE test_basic_allocator 34: SEQAN_ENABLE_DEBUG == 1 34: SEQAN_ENABLE_TESTING == 1 @@ -303024,7 +303464,7 @@ 34: Skipped: 0 34: Errors: 0 34: ************************************** - 13/414 Test #34: test_test_basic_allocator ......................................................... Passed 0.03 sec + 26/414 Test #34: test_test_basic_allocator ......................................................... Passed 0.41 sec 35: TEST SUITE test_basic_parallelism 35: SEQAN_ENABLE_DEBUG == 1 35: SEQAN_ENABLE_TESTING == 1 @@ -303036,7 +303476,7 @@ 35: Skipped: 0 35: Errors: 0 35: ************************************** - 14/414 Test #35: test_test_basic_parallelism ....................................................... Passed 0.03 sec + 27/414 Test #35: test_test_basic_parallelism ....................................................... Passed 0.40 sec 36: TEST SUITE test_basic_math 36: SEQAN_ENABLE_DEBUG == 1 36: SEQAN_ENABLE_TESTING == 1 @@ -303052,7 +303492,7 @@ 36: Skipped: 0 36: Errors: 0 36: ************************************** - 15/414 Test #36: test_test_basic_math .............................................................. Passed 0.03 sec + 28/414 Test #36: test_test_basic_math .............................................................. Passed 0.39 sec 37: TEST SUITE test_basic_smart_pointer 37: SEQAN_ENABLE_DEBUG == 1 37: SEQAN_ENABLE_TESTING == 1 @@ -303075,7 +303515,7 @@ 37: Skipped: 0 37: Errors: 0 37: ************************************** - 16/414 Test #37: test_test_basic_smart_pointer ..................................................... Passed 0.03 sec + 29/414 Test #37: test_test_basic_smart_pointer ..................................................... Passed 0.38 sec 38: TEST SUITE test_basic_container 38: SEQAN_ENABLE_DEBUG == 1 38: SEQAN_ENABLE_TESTING == 1 @@ -303086,7 +303526,7 @@ 38: Skipped: 0 38: Errors: 0 38: ************************************** - 17/414 Test #38: test_test_basic_container ......................................................... Passed 0.03 sec + 30/414 Test #38: test_test_basic_container ......................................................... Passed 0.37 sec 39: TEST SUITE test_basic_proxy 39: SEQAN_ENABLE_DEBUG == 1 39: SEQAN_ENABLE_TESTING == 1 @@ -303103,7 +303543,7 @@ 39: Skipped: 0 39: Errors: 0 39: ************************************** - 18/414 Test #39: test_test_basic_proxy ............................................................. Passed 0.03 sec + 31/414 Test #39: test_test_basic_proxy ............................................................. Passed 0.36 sec 40: TEST SUITE test_basic_iterator 40: SEQAN_ENABLE_DEBUG == 1 40: SEQAN_ENABLE_TESTING == 1 @@ -303146,106 +303586,7 @@ 40: Skipped: 0 40: Errors: 0 40: ************************************** - 19/414 Test #40: test_test_basic_iterator .......................................................... Passed 0.03 sec - 20/414 Test #23: test_test_align_split ............................................................. Passed 0.05 sec -test 50 - Start 50: test_test_graph_types_property_map - -50: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_property_map -50: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types -50: Test timeout computed to be: 10000000 -test 51 - Start 51: test_test_graph_types_derived - -51: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_derived -51: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types -51: Test timeout computed to be: 10000000 -test 52 - Start 52: test_test_graph_types_iterators - -52: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_iterators -52: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types -52: Test timeout computed to be: 10000000 -test 53 - Start 53: test_test_graph_types_types - -53: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_types -53: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types -53: Test timeout computed to be: 10000000 -test 54 - Start 54: test_test_graph_types_utils - -54: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_graph_types_utils -54: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/graph_types -54: Test timeout computed to be: 10000000 -test 55 - Start 55: test_test_index_creation - -55: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_creation -55: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -55: Test timeout computed to be: 10000000 -test 56 - Start 56: test_test_index_crosscompare_char - -56: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_char -56: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -56: Test timeout computed to be: 10000000 -test 57 - Start 57: test_test_index_crosscompare_char_dfi - -57: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_char_dfi -57: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -57: Test timeout computed to be: 10000000 -test 58 - Start 58: test_test_index_crosscompare_dna - -58: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_dna -58: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -58: Test timeout computed to be: 10000000 -test 59 - Start 59: test_test_index_crosscompare_dna_dfi - -59: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_crosscompare_dna_dfi -59: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -59: Test timeout computed to be: 10000000 -test 60 - Start 60: test_test_index_qgram - -60: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_qgram -60: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -60: Test timeout computed to be: 10000000 - 21/414 Test #2: test_test_align_simd_global_equal_length .......................................... Passed 0.13 sec - 22/414 Test #11: test_test_align_simd_local_variable_length ........................................ Passed 0.11 sec -27: test_bam_io_bam_write_alignment OK -27: test_bam_io_bam_file_isOpen_fileIn OK -27: test_bam_io_bam_file_isOpen_fileOut OK -27: test_bam_io_bam_file_sam_file_size OK -27: test_bam_io_bam_file_sam_read_header OK -27: test_bam_io_bam_file_sam_read_records OK -27: test_bam_io_bam_file_sam_write_header OK -27: test_bam_io_bam_file_sam_write_records OK -9: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -15: test_align_parallel_wavefront_alignment_scheduler_construct OK -15: test_align_parallel_wavefront_alignment_scheduler_async OK -15: test_align_parallel_wavefront_alignment_scheduler_async_with_exception OK -15: test_align_parallel_intermediate_dp_result_construct OK -15: test_align_parallel_intermediate_dp_result_update_max OK -15: test_align_parallel_intermediate_dp_result_clear OK -15: test_align_parallel_wavefront_alignment_thread_local_storage_construt OK -15: test_align_parallel_wavefront_alignment_thread_local_storage_cache OK -15: test_align_parallel_wavefront_alignment_thread_local_storage_intermediate OK -15: ************************************** -15: Total Tests: 11 -15: Skipped: 0 -15: Errors: 0 -15: ************************************** + 32/414 Test #40: test_test_basic_iterator .......................................................... Passed 0.35 sec 41: TEST SUITE test_bed_io 41: SEQAN_ENABLE_DEBUG == 1 41: SEQAN_ENABLE_TESTING == 1 @@ -303270,7 +303611,7 @@ 41: Skipped: 0 41: Errors: 0 41: ************************************** - 23/414 Test #41: test_test_bed_io .................................................................. Passed 0.04 sec + 33/414 Test #41: test_test_bed_io .................................................................. Passed 0.33 sec 42: TEST SUITE test_blast 42: SEQAN_ENABLE_DEBUG == 1 42: SEQAN_ENABLE_TESTING == 1 @@ -303300,6 +303641,111 @@ 42: test_blast_write_report_constexpr_dynmatrix OK 42: test_blast_read_lowlevel OK 42: test_blast_read_tabular_without_comments OK +42: test_blast_read_tabular_without_comments_customfields OK +42: test_blast_read_tabular_without_comments_legacy OK +42: test_blast_read_tabular_without_comments_constexpr OK +42: test_blast_read_tabular_without_comments_customfields_constexpr OK +42: test_blast_read_tabular_without_comments_legacy_constexpr OK +42: test_blast_read_tabular_with_comments OK +42: test_blast_read_tabular_with_comments_customfields OK +42: test_blast_read_tabular_with_comments_legacy OK +42: test_blast_read_tabular_with_comments_constexpr OK +42: test_blast_read_tabular_with_comments_customfields_constexpr OK +42: test_blast_read_tabular_with_comments_legacy_constexpr OK +42: ************************************** +42: Total Tests: 35 +42: Skipped: 0 +42: Errors: 0 +42: ************************************** +test 66 + Start 66: test_test_index_base + +66: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_base +66: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +66: Test timeout computed to be: 10000000 +test 67 + Start 67: test_test_index_fm + +67: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm +67: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +67: Test timeout computed to be: 10000000 +test 68 + Start 68: test_test_index_bifm + +68: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_bifm +68: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +68: Test timeout computed to be: 10000000 +test 69 + Start 69: test_test_index_vstree + +69: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_vstree +69: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +69: Test timeout computed to be: 10000000 +test 70 + Start 70: test_test_index_view + +70: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_view +70: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +70: Test timeout computed to be: 10000000 +test 71 + Start 71: test_test_index_finder + +71: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_finder +71: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +71: Test timeout computed to be: 10000000 +test 72 + Start 72: test_test_find_backtracking + +72: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_backtracking +72: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +72: Test timeout computed to be: 10000000 +test 73 + Start 73: test_test_index_repeats + +73: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_repeats +73: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index +73: Test timeout computed to be: 10000000 +test 74 + Start 74: test_test_journaled_set + +74: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_set +74: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set +74: Test timeout computed to be: 10000000 +test 75 + Start 75: test_test_journaled_string_tree + +75: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree +75: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +75: Test timeout computed to be: 10000000 +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +16: ************************************** +16: Total Tests: 12 +16: Skipped: 0 +16: Errors: 0 +16: ************************************** +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +21: test_align_parallel_wavefront_multiple_global_alignment OK +20: test_align_parallel_wavefront_multiple_global_alignment OK +24: test_alignment_free_n2_dna5 OK +24: test_alignment_free_calculate_probability OK +24: test_alignment_free_calculate_variance OK +24: test_alignment_free_calculate_covariance OK 43: TEST SUITE test_consensus 43: SEQAN_ENABLE_DEBUG == 1 43: SEQAN_ENABLE_TESTING == 1 @@ -303334,6 +303780,8 @@ 44: SEQAN_ENABLE_TESTING == 1 44: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 44: SEQAN_ASYNC_IO == 1 +44: test_consensus_consensus_alignment_coordinates OK +44: test_consensus_consensus_alignment_contig_ids OK 45: TEST SUITE test_find 45: SEQAN_ENABLE_DEBUG == 1 45: SEQAN_ENABLE_TESTING == 1 @@ -303349,6 +303797,19 @@ 46: test_store_io_write_record_context_gff OK 46: test_store_io_comment_processing_context_gff OK 46: test_store_io_read_record_context_gtf OK +46: test_store_io_read_record_gtf_pseudogenes OK +46: test_store_io_write_record_context_gtf OK +46: test_store_io_gff_stream_read_record_gff OK +46: test_store_io_gff_stream_read_record_gtf OK +46: test_store_io_gff_stream_write_record_gff OK +46: test_store_io_gff_stream_write_record_gtf OK +46: test_gff_io_isOpen_fileIn OK +46: test_gff_io_isOpen_fileOut OK +46: ************************************** +46: Total Tests: 12 +46: Skipped: 0 +46: Errors: 0 +46: ************************************** 47: TEST SUITE test_graph_algorithms 47: SEQAN_ENABLE_DEBUG == 1 47: SEQAN_ENABLE_TESTING == 1 @@ -303381,7 +303842,6 @@ 47: Skipped: 0 47: Errors: 0 47: ************************************** - 24/414 Test #47: test_test_graph_algorithms ........................................................ Passed 0.03 sec 48: TEST SUITE test_graph_align 48: SEQAN_ENABLE_DEBUG == 1 48: SEQAN_ENABLE_TESTING == 1 @@ -303401,78 +303861,14 @@ 48: Skipped: 1 48: Errors: 0 48: ************************************** - 25/414 Test #48: test_test_graph_align ............................................................. Passed 0.03 sec 49: TEST SUITE test_graph_msa 49: SEQAN_ENABLE_DEBUG == 1 49: SEQAN_ENABLE_TESTING == 1 49: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 49: SEQAN_ASYNC_IO == 1 49: test_graph_msa_guide_tree_neighbour_joining OK -test 61 - Start 61: test_test_index_sa_bwtwalk - -61: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_sa_bwtwalk -61: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -61: Test timeout computed to be: 10000000 -test 62 - Start 62: test_test_index_shapes - -62: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_shapes -62: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -62: Test timeout computed to be: 10000000 -test 63 - Start 63: test_test_index_drawing - -63: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_drawing -63: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -63: Test timeout computed to be: 10000000 -test 64 - Start 64: test_test_index_fm_rank_dictionary - -64: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm_rank_dictionary -64: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -64: Test timeout computed to be: 10000000 -test 65 - Start 65: test_test_index_fm_sparse_string - -65: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm_sparse_string -65: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -65: Test timeout computed to be: 10000000 -4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -14: test_align_extend_simple_infixes_recomp OK -14: test_align_extend_banded OK -14: test_align_extend_xdrop OK -14: test_align_extend_xdrop_banded OK -14: test_align_extend_semiglobal OK -14: ************************************** -14: Total Tests: 6 -14: Skipped: 0 -14: Errors: 0 -14: ************************************** -3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK +49: test_graph_msa_guide_tree_upgma_weight_avg OK +49: test_graph_msa_guide_tree_upgma_avg OK 50: TEST SUITE test_graph_types_property_map 50: SEQAN_ENABLE_DEBUG == 1 50: SEQAN_ENABLE_TESTING == 1 @@ -303605,15 +304001,15 @@ 60: testUngappedShapes OK 60: testUngappedQGramIndex OK 60: start -60: scan took 1.5375e-05 seconds. +60: scan took 5.21308e-06 seconds. 60: start write -60: writing took 9.74e-06 seconds. -60: reading took 6.27944e-07 seconds. +60: writing took 7.59913e-06 seconds. +60: reading took 7.34115e-07 seconds. 60: start -60: scan took 1.30469e-05 seconds. +60: scan took 4.30294e-06 seconds. 60: start write -60: writing took 2.07196e-06 seconds. -60: reading took 4.25847e-07 seconds. +60: writing took 2.97395e-06 seconds. +60: reading took 6.67991e-07 seconds. 60: testUngappedQGramIndexMulti OK 60: testQGramFind OK 60: ************************************** @@ -303621,185 +304017,6 @@ 60: Skipped: 0 60: Errors: 0 60: ************************************** - 26/414 Test #14: test_test_align_extend ............................................................ Passed 0.10 sec - 27/414 Test #15: test_align_parallel_data_structures ............................................... Passed 0.10 sec - 28/414 Test #43: test_test_consensus ............................................................... Passed 0.05 sec - 29/414 Test #50: test_test_graph_types_property_map ................................................ Passed 0.04 sec - 30/414 Test #51: test_test_graph_types_derived ..................................................... Passed 0.03 sec - 31/414 Test #52: test_test_graph_types_iterators ................................................... Passed 0.03 sec - 32/414 Test #53: test_test_graph_types_types ....................................................... Passed 0.03 sec - 33/414 Test #54: test_test_graph_types_utils ....................................................... Passed 0.03 sec - 34/414 Test #56: test_test_index_crosscompare_char ................................................. Passed 0.03 sec - 35/414 Test #57: test_test_index_crosscompare_char_dfi ............................................. Passed 0.02 sec - 36/414 Test #59: test_test_index_crosscompare_dna_dfi .............................................. Passed 0.02 sec -test 66 - Start 66: test_test_index_base - -66: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_base -66: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -66: Test timeout computed to be: 10000000 -test 67 - Start 67: test_test_index_fm - -67: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_fm -67: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -67: Test timeout computed to be: 10000000 -test 68 - Start 68: test_test_index_bifm - -68: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_bifm -68: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -68: Test timeout computed to be: 10000000 -test 69 - Start 69: test_test_index_vstree - -69: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_vstree -69: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -69: Test timeout computed to be: 10000000 -test 70 - Start 70: test_test_index_view - -70: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_view -70: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -70: Test timeout computed to be: 10000000 -test 71 - Start 71: test_test_index_finder - -71: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_finder -71: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -71: Test timeout computed to be: 10000000 -test 72 - Start 72: test_test_find_backtracking - -72: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_find_backtracking -72: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -72: Test timeout computed to be: 10000000 -test 73 - Start 73: test_test_index_repeats - -73: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_index_repeats -73: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/index -73: Test timeout computed to be: 10000000 -test 74 - Start 74: test_test_journaled_set - -74: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_set -74: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_set -74: Test timeout computed to be: 10000000 -test 75 - Start 75: test_test_journaled_string_tree - -75: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_journaled_string_tree -75: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -75: Test timeout computed to be: 10000000 -test 76 - Start 76: test_test_delta_map - -76: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_delta_map -76: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree -76: Test timeout computed to be: 10000000 -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK - 37/414 Test #60: test_test_index_qgram ............................................................. Passed 0.07 sec -46: test_store_io_read_record_gtf_pseudogenes OK -46: test_store_io_write_record_context_gtf OK -46: test_store_io_gff_stream_read_record_gff OK -46: test_store_io_gff_stream_read_record_gtf OK -46: test_store_io_gff_stream_write_record_gff OK -46: test_store_io_gff_stream_write_record_gtf OK -46: test_gff_io_isOpen_fileIn OK -46: test_gff_io_isOpen_fileOut OK -46: ************************************** -46: Total Tests: 12 -46: Skipped: 0 -46: Errors: 0 -46: ************************************** - 38/414 Test #46: test_test_gff_io .................................................................. Passed 0.09 sec -42: test_blast_read_tabular_without_comments_customfields OK -42: test_blast_read_tabular_without_comments_legacy OK -42: test_blast_read_tabular_without_comments_constexpr OK -42: test_blast_read_tabular_without_comments_customfields_constexpr OK -42: test_blast_read_tabular_without_comments_legacy_constexpr OK -42: test_blast_read_tabular_with_comments OK -42: test_blast_read_tabular_with_comments_customfields OK -42: test_blast_read_tabular_with_comments_legacy OK -42: test_blast_read_tabular_with_comments_constexpr OK -42: test_blast_read_tabular_with_comments_customfields_constexpr OK -42: test_blast_read_tabular_with_comments_legacy_constexpr OK -42: ************************************** -42: Total Tests: 35 -42: Skipped: 0 -42: Errors: 0 -42: ************************************** -27: test_bam_io_bam_file_bam_file_size OK -27: test_bam_io_bam_file_bam_read_header OK -27: test_bam_io_bam_file_bam_read_records OK -27: test_bam_io_bam_file_bam_read_ex1 OK -10: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -10: ************************************** -10: Total Tests: 12 -10: Skipped: 0 -10: Errors: 0 -10: ************************************** -9: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -9: ************************************** -9: Total Tests: 12 -9: Skipped: 0 -9: Errors: 0 -9: ************************************** -12: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -12: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -12: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -12: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -12: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -12: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -12: ************************************** -12: Total Tests: 6 -12: Skipped: 0 -12: Errors: 0 -12: ************************************** -44: test_consensus_consensus_alignment_coordinates OK -26: TEST SUITE test_arg_parse -26: SEQAN_ENABLE_DEBUG == 1 -26: SEQAN_ENABLE_TESTING == 1 -26: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -26: SEQAN_ASYNC_IO == 1 -26: test_path_availability OK -26: test_delete_version_files OK -26: test_create_files OK -26: test_option_on OK -26: test_delete_version_files OK -26: test_option_off OK -26: test_delete_version_files OK -26: test_smaller_seqan_version OK -26: test_delete_version_files OK -26: test_delete_version_files OK -26: test_smaller_app_version OK -26: test_delete_version_files OK -26: test_greater_app_version OK -26: test_delete_version_files OK -26: test_time_out OK -26: ************************************** -26: Total Tests: 15 -26: Skipped: 0 -26: Errors: 0 -26: ************************************** 61: TEST SUITE test_index 61: SEQAN_ENABLE_DEBUG == 1 61: SEQAN_ENABLE_TESTING == 1 @@ -303816,7 +304033,6 @@ 62: Skipped: 0 62: Errors: 0 62: ************************************** - 39/414 Test #62: test_test_index_shapes ............................................................ Passed 0.06 sec 63: TEST SUITE test_index_drawing 63: SEQAN_ENABLE_DEBUG == 1 63: SEQAN_ENABLE_TESTING == 1 @@ -303828,7 +304044,6 @@ 63: Skipped: 0 63: Errors: 0 63: ************************************** - 40/414 Test #63: test_test_index_drawing ........................................................... Passed 0.06 sec 64: TEST SUITE tests 64: SEQAN_ENABLE_DEBUG == 1 64: SEQAN_ENABLE_TESTING == 1 @@ -303914,6 +304129,42 @@ 64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK 64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK 64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK 65: TEST SUITE test_fm_index_sparse_string 65: SEQAN_ENABLE_DEBUG == 1 65: SEQAN_ENABLE_TESTING == 1 @@ -303928,7 +304179,30 @@ 65: Skipped: 0 65: Errors: 0 65: ************************************** - 41/414 Test #65: test_test_index_fm_sparse_string .................................................. Passed 0.05 sec + 34/414 Test #16: test_test_align_parallel_interface ................................................ Passed 0.79 sec + 35/414 Test #42: test_blast ........................................................................ Passed 0.47 sec + 36/414 Test #43: test_test_consensus ............................................................... Passed 0.40 sec + 37/414 Test #46: test_test_gff_io .................................................................. Passed 0.37 sec + 38/414 Test #47: test_test_graph_algorithms ........................................................ Passed 0.36 sec + 39/414 Test #48: test_test_graph_align ............................................................. Passed 0.35 sec + 40/414 Test #50: test_test_graph_types_property_map ................................................ Passed 0.32 sec + 41/414 Test #51: test_test_graph_types_derived ..................................................... Passed 0.31 sec + 42/414 Test #52: test_test_graph_types_iterators ................................................... Passed 0.30 sec + 43/414 Test #53: test_test_graph_types_types ....................................................... Passed 0.29 sec + 44/414 Test #54: test_test_graph_types_utils ....................................................... Passed 0.28 sec + 45/414 Test #56: test_test_index_crosscompare_char ................................................. Passed 0.26 sec + 46/414 Test #57: test_test_index_crosscompare_char_dfi ............................................. Passed 0.25 sec + 47/414 Test #59: test_test_index_crosscompare_dna_dfi .............................................. Passed 0.23 sec + 48/414 Test #60: test_test_index_qgram ............................................................. Passed 0.22 sec + 49/414 Test #62: test_test_index_shapes ............................................................ Passed 0.20 sec + 50/414 Test #63: test_test_index_drawing ........................................................... Passed 0.18 sec + 51/414 Test #65: test_test_index_fm_sparse_string .................................................. Passed 0.16 sec +test 76 + Start 76: test_test_delta_map + +76: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_delta_map +76: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/journaled_string_tree +76: Test timeout computed to be: 10000000 test 77 Start 77: test_journaled_string_tree_traverser @@ -303959,72 +304233,85 @@ 81: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_modifier 81: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier 81: Test timeout computed to be: 10000000 - 42/414 Test #42: test_blast ........................................................................ Passed 0.13 sec - 43/414 Test #10: test_test_align_simd_local_equal_length_avx2_host ................................. Passed 0.21 sec - 44/414 Test #9: test_test_align_simd_local_equal_length_sse4_host ................................. Passed 0.21 sec - 45/414 Test #12: test_test_align_simd_local_variable_length_sse4_host .............................. Passed 0.19 sec - 46/414 Test #26: test_test_arg_parse_version_check ................................................. Passed 0.17 sec -58: testIndexCrossCompareDnaStrings OK -58: ************************************** -58: Total Tests: 2 -58: Skipped: 0 -58: Errors: 0 -58: ************************************** - 47/414 Test #58: test_test_index_crosscompare_dna .................................................. Passed 0.11 sec -49: test_graph_msa_guide_tree_upgma_weight_avg OK -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Linear_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -24: test_alignment_free_n2_dna5 OK -24: test_alignment_free_calculate_probability OK -24: test_alignment_free_calculate_variance OK -24: test_alignment_free_calculate_covariance OK +test 82 + Start 82: test_test_modifier_cyclic_shape + +82: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_modifier_cyclic_shape +82: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape +82: Test timeout computed to be: 10000000 +test 83 + Start 83: test_test_multiple_translation_units + +83: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_multiple_translation_units +83: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units +83: Test timeout computed to be: 10000000 +test 84 + Start 84: test_test_parallel + +84: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_parallel +84: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel +84: Test timeout computed to be: 10000000 +test 85 + Start 85: test_test_parse_lm + +85: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_parse_lm +85: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm +85: Test timeout computed to be: 10000000 +test 86 + Start 86: test_test_pipe + +86: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_pipe +86: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe +86: Test timeout computed to be: 10000000 +test 87 + Start 87: test_test_platform + +87: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_platform +87: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform +87: Test timeout computed to be: 10000000 +test 88 + Start 88: test_test_random + +88: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_random +88: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random +88: Test timeout computed to be: 10000000 +test 89 + Start 89: test_test_realign + +89: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_realign +89: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign +89: Test timeout computed to be: 10000000 +test 90 + Start 90: test_reduced_aminoacid + +90: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_reduced_aminoacid +90: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid +90: Test timeout computed to be: 10000000 +test 91 + Start 91: test_test_rna_io + +91: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_rna_io +91: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io +91: Test timeout computed to be: 10000000 +test 92 + Start 92: test_test_roi_io + +92: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_roi_io +92: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io +92: Test timeout computed to be: 10000000 +test 93 + Start 93: test_test_score + +93: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_score +93: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score +93: Test timeout computed to be: 10000000 +19: test_align_parallel_wavefront_multiple_global_alignment OK +19: ************************************** +19: Total Tests: 2 +19: Skipped: 0 +19: Errors: 0 +19: ************************************** + 52/414 Test #19: test_test_align_parallel_algorithm ................................................ Passed 1.04 sec 66: TEST SUITE tests 66: SEQAN_ENABLE_DEBUG == 1 66: SEQAN_ENABLE_TESTING == 1 @@ -304068,7 +304355,7 @@ 70: Skipped: 0 70: Errors: 0 70: ************************************** - 48/414 Test #70: test_test_index_view .............................................................. Passed 0.07 sec + 53/414 Test #70: test_test_index_view .............................................................. Passed 0.41 sec 71: TEST SUITE tests 71: SEQAN_ENABLE_DEBUG == 1 71: SEQAN_ENABLE_TESTING == 1 @@ -304092,13 +304379,20 @@ 72: Skipped: 0 72: Errors: 0 72: ************************************** - 49/414 Test #72: test_test_find_backtracking ....................................................... Passed 0.06 sec + 54/414 Test #72: test_test_find_backtracking ....................................................... Passed 0.39 sec 73: TEST SUITE test_index_repeats 73: SEQAN_ENABLE_DEBUG == 1 73: SEQAN_ENABLE_TESTING == 1 73: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 73: SEQAN_ASYNC_IO == 1 73: test_index_repeats_period_1_ignore_minlen_for_ns OK +73: test_index_repeats_period_1_no_ns OK +73: test_index_repeats_period_1_many_ns OK +73: ************************************** +73: Total Tests: 3 +73: Skipped: 0 +73: Errors: 0 +73: ************************************** 74: TEST SUITE test_journaled_set 74: SEQAN_ENABLE_DEBUG == 1 74: SEQAN_ENABLE_TESTING == 1 @@ -304120,7 +304414,7 @@ 74: Skipped: 0 74: Errors: 0 74: ************************************** - 50/414 Test #74: test_test_journaled_set ........................................................... Passed 0.05 sec + 55/414 Test #74: test_test_journaled_set ........................................................... Passed 0.35 sec 75: TEST SUITE test_journaled_string_tree 75: SEQAN_ENABLE_DEBUG == 1 75: SEQAN_ENABLE_TESTING == 1 @@ -304142,76 +304436,206 @@ 75: Skipped: 0 75: Errors: 0 75: ************************************** - 51/414 Test #75: test_test_journaled_string_tree ................................................... Passed 0.05 sec -test 82 - Start 82: test_test_modifier_cyclic_shape - -82: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_modifier_cyclic_shape -82: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/modifier_cyclic_shape -82: Test timeout computed to be: 10000000 -test 83 - Start 83: test_test_multiple_translation_units - -83: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_multiple_translation_units -83: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/multiple_translation_units -83: Test timeout computed to be: 10000000 -test 84 - Start 84: test_test_parallel - -84: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_parallel -84: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parallel -84: Test timeout computed to be: 10000000 -test 85 - Start 85: test_test_parse_lm - -85: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_parse_lm -85: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/parse_lm -85: Test timeout computed to be: 10000000 -test 86 - Start 86: test_test_pipe - -86: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_pipe -86: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/pipe -86: Test timeout computed to be: 10000000 -test 87 - Start 87: test_test_platform + 56/414 Test #75: test_test_journaled_string_tree ................................................... Passed 0.34 sec +test 94 + Start 94: test_test_seeds_combination -87: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_platform -87: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/platform -87: Test timeout computed to be: 10000000 -test 88 - Start 88: test_test_random +94: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_combination +94: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +94: Test timeout computed to be: 10000000 +test 95 + Start 95: test_test_seeds_extension -88: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_random -88: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/random -88: Test timeout computed to be: 10000000 -test 89 - Start 89: test_test_realign +95: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_extension +95: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +95: Test timeout computed to be: 10000000 +test 96 + Start 96: test_test_seeds_global_chaining -89: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_realign -89: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/realign -89: Test timeout computed to be: 10000000 -test 90 - Start 90: test_reduced_aminoacid +96: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_global_chaining +96: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +96: Test timeout computed to be: 10000000 +test 97 + Start 97: test_test_seeds_seed_base -90: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_reduced_aminoacid -90: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/reduced_aminoacid -90: Test timeout computed to be: 10000000 -test 91 - Start 91: test_test_rna_io +97: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_base +97: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +97: Test timeout computed to be: 10000000 +test 98 + Start 98: test_test_seeds_seed_chained -91: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_rna_io -91: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/rna_io -91: Test timeout computed to be: 10000000 -7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Linear_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK +98: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_chained +98: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +98: Test timeout computed to be: 10000000 +44: test_consensus_consensus_alignment_no_contig_ids OK +44: test_consensus_consensus_alignment_global_alignment OK +44: ************************************** +44: Total Tests: 4 +44: Skipped: 0 +44: Errors: 0 +44: ************************************** +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +18: ************************************** +18: Total Tests: 24 +18: Skipped: 0 +18: Errors: 0 +18: ************************************** +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK +17: ************************************** +17: Total Tests: 24 +17: Skipped: 0 +17: Errors: 0 +17: ************************************** +45: test_myers_find_banded OK +45: test_myers_find_banded_csp OK +45: test_myers_find_infix_find_begin_at_start OK +45: test_myers_find_infix_find_begin_within OK +45: test_find_on_segments OK +45: test_find_hamming_simple OK +45: test_find_hamming_simple_regression_rmbench OK +45: test_regression_rmbench OK +45: test_find_online_Simple OK +45: test_find_online_Horspool OK +45: test_find_online_ShiftAnd OK +45: test_find_online_ShiftOr OK +45: test_find_online_BndmAlgo OK +45: test_find_online_BFAM_Oracle OK +45: test_find_online_BFAM_Trie OK +45: test_find_online_wildcards OK +45: test_find_online_multi_AhoCorasick OK +45: test_find_online_multi_MultipleShiftAnd OK +45: test_find_online_multi_SetHorspool OK +45: test_find_online_multi_WuManber OK +45: test_find_online_multi_MultiBFAM_Oracle OK +45: test_find_online_multi_MultiBFAM_Trie OK +45: test_find_approx_prefix_edit_dist_dpsearch OK +45: test_approx_prefix_edit_dist_myers OK +45: test_approx_edit_dist_dp_search_simple_score OK +45: test_approx_edit_dist_myers OK +45: test_approx_edit_dp_search_simple_score_legacy_case OK +45: test_approx_edit_dist_abndm_algo OK +45: test_approx_edit_dist_pex_non_hierarchical OK +45: test_approx_edit_dist_pex_hierarchical OK +45: test_approx_edit_dist_pex_non_hierarchical_aho_corasick OK +45: test_approx_edit_dist_pex_non_hierarchical_multi_bfam OK +45: test_find_hamming_simple OK +45: test_pattern_copycon OK +45: test_pattern_assign OK +45: test_pattern_movecon OK +45: test_pattern_moveassign OK +45: test_pattern_set_host OK +45: ************************************** +45: Total Tests: 39 +45: Skipped: 0 +45: Errors: 0 +45: ************************************** +61: testBWTWalk OK +61: ************************************** +61: Total Tests: 1 +61: Skipped: 0 +61: Errors: 0 +61: ************************************** +49: test_graph_msa_guide_tree_upgma_min OK +49: test_graph_msa_guide_tree_upgma_max OK +49: test_distances OK +49: test_libraries OK +49: test_external_libraries OK +49: test_triplet_extension OK +49: test_sop OK +49: test_progressive OK +49: test_reversable_fragments OK +49: ************************************** +49: Total Tests: 12 +49: Skipped: 0 +49: Errors: 0 +49: ************************************** +20: test_align_parallel_wavefront_multiple_global_alignment_simd OK +20: ************************************** +20: Total Tests: 3 +20: Skipped: 0 +20: Errors: 0 +20: ************************************** +55: testIndexCreation OK +55: ************************************** +55: Total Tests: 6 +55: Skipped: 0 +55: Errors: 0 +55: ************************************** 76: TEST SUITE test_delta_map 76: SEQAN_ENABLE_DEBUG == 1 76: SEQAN_ENABLE_TESTING == 1 @@ -304249,74 +304673,6 @@ 76: Skipped: 0 76: Errors: 0 76: ************************************** -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_CreateRankDictionary type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_ClearEmpty type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -44: test_consensus_consensus_alignment_contig_ids OK -44: test_consensus_consensus_alignment_no_contig_ids OK -44: test_consensus_consensus_alignment_global_alignment OK -44: ************************************** -44: Total Tests: 4 -44: Skipped: 0 -44: Errors: 0 -44: ************************************** -18: ParallelAlignInterfaceTestCommon_Global_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -27: test_bam_io_bam_file_bam_write_header OK -27: test_bam_io_bam_file_bam_write_records OK 77: TEST SUITE test_journaled_string_tree_traverser 77: SEQAN_ENABLE_DEBUG == 1 77: SEQAN_ENABLE_TESTING == 1 @@ -304324,11 +304680,86 @@ 77: SEQAN_ASYNC_IO == 1 77: test_journaled_string_tree_traverser_constructor OK 77: test_journaled_string_tree_traverser_traverser OK +77: test_journaled_string_tree_traverser_init OK +77: test_journaled_string_tree_traverser_context_size OK +77: test_journaled_string_tree_traverser_branch_size OK +77: test_journaled_string_tree_traverser_at_end OK +77: test_journaled_string_tree_traverser_is_base OK +77: test_journaled_string_tree_traverser_advance OK +77: test_journaled_string_tree_traverser_context_iterator OK +77: test_journaled_string_tree_traverser_container OK +77: test_journaled_string_tree_traverser_basic_traversal OK +77: ************************************** +77: Total Tests: 11 +77: Skipped: 0 +77: Errors: 0 +77: ************************************** 78: TEST SUITE test_journaled_string_tree_find 78: SEQAN_ENABLE_DEBUG == 1 78: SEQAN_ENABLE_TESTING == 1 78: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 78: SEQAN_ASYNC_IO == 1 +79: TEST SUITE test_map +79: SEQAN_ENABLE_DEBUG == 1 +79: SEQAN_ENABLE_TESTING == 1 +79: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +79: SEQAN_ASYNC_IO == 1 +80: TEST SUITE test_misc +80: SEQAN_ENABLE_DEBUG == 1 +80: SEQAN_ENABLE_TESTING == 1 +80: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +80: SEQAN_ASYNC_IO == 1 +80: test_misc_terminal_get_terminal_size OK +80: test_misc_bit_twiddling_pop_count_char OK +80: test_misc_bit_twiddling_pop_count_signed_char OK +80: test_misc_bit_twiddling_pop_count_unsigned_char OK +80: test_misc_bit_twiddling_pop_count_short OK +80: test_misc_bit_twiddling_pop_count_signed_short OK +80: test_misc_bit_twiddling_pop_count_unsigned_short OK +80: test_misc_bit_twiddling_pop_count_int OK +80: test_misc_bit_twiddling_pop_count_signed_int OK +80: test_misc_bit_twiddling_pop_count_unsigned_int OK +80: test_misc_bit_twiddling_pop_count_long OK +80: test_misc_bit_twiddling_pop_count_signed_long OK +80: test_misc_bit_twiddling_pop_count_unsigned_long OK +80: test_misc_bit_twiddling_pop_count_long_long OK +80: test_misc_bit_twiddling_pop_count_signed_long_long OK +80: test_misc_bit_twiddling_pop_count_unsigned_long_long OK +80: test_misc_bit_twiddling_pop_count_int8 OK +80: test_misc_bit_twiddling_pop_count_uint8 OK +80: test_misc_bit_twiddling_pop_count_int16 OK +80: test_misc_bit_twiddling_pop_count_uint16 OK +80: test_misc_bit_twiddling_pop_count_int32 OK +80: test_misc_bit_twiddling_pop_count_uint32 OK +80: test_misc_bit_twiddling_pop_count_int64 OK +80: test_misc_bit_twiddling_pop_count_uint64 OK +80: Interval_Tree__IntervalTreeTest_QueryAtBoundary OK +80: Interval_Tree__IntervalTreeTest_IntervalTree__int OK +80: Interval_Tree__IntervalTreeTest_IntervalTreeFromIterator__int OK +80: Interval_Tree__IntervalTreeTest_NonFullLength__int OK +80: Interval_Tree__IntervalTreeTest_AddInterval__int OK +80: Interval_Tree__IntervalTreeTest_TreeStructure__int OK +80: Interval_Tree__IntervalTreeTest_FindIntervalExcludeTouching__int OK +80: Interval_Tree__IntervalTreeTest_FindNoInterval__int OK +80: Interval_Tree__IntervalTreeTest_GraphMap__int_ComputeCenter_StoreIntervals OK +80: Interval_Tree__IntervalTreeTest_FindIntervalsIntervals__int_ComputeCenter OK +80: test_misc_accumulators_average_accumulator_int_average OK +80: test_misc_accumulators_average_accumulator_int_count OK +80: test_misc_accumulators_average_accumulator_int_sum OK +80: test_misc_accumulators_average_accumulator_int_clear OK +80: test_misc_accumulators_average_accumulator_double_average OK +80: test_misc_accumulators_average_accumulator_double_count OK +80: test_misc_accumulators_average_accumulator_double_sum OK +80: test_misc_accumulators_average_accumulator_double_clear OK +80: test_misc_edit_environment_string_enumerator_hamming OK +80: test_misc_edit_environment_string_enumerator_iterator_hamming OK +80: test_misc_edit_environment_string_enumerator_edit OK +80: test_misc_edit_environment_string_enumerator_iterator_edit OK +80: ************************************** +80: Total Tests: 46 +80: Skipped: 0 +80: Errors: 0 +80: ************************************** 81: TEST SUITE test_modifier 81: SEQAN_ENABLE_DEBUG == 1 81: SEQAN_ENABLE_TESTING == 1 @@ -304399,171 +304830,6 @@ 81: Skipped: 0 81: Errors: 0 81: ************************************** - 52/414 Test #76: test_test_delta_map ............................................................... Passed 0.12 sec -test 92 - Start 92: test_test_roi_io - -92: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_roi_io -92: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/roi_io -92: Test timeout computed to be: 10000000 -7: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK - 53/414 Test #44: test_test_consensus_v2 ............................................................ Passed 0.22 sec - 54/414 Test #81: test_test_modifier ................................................................ Passed 0.09 sec -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -4: ************************************** -4: Total Tests: 48 -4: Skipped: 0 -4: Errors: 0 -4: ************************************** - 55/414 Test #4: test_test_align_simd_global_equal_length_avx2_host ................................ Passed 0.31 sec -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -3: ************************************** -3: Total Tests: 48 -3: Skipped: 0 -3: Errors: 0 -3: ************************************** - 56/414 Test #3: test_test_align_simd_global_equal_length_sse4_host ................................ Passed 0.31 sec -79: TEST SUITE test_map -79: SEQAN_ENABLE_DEBUG == 1 -79: SEQAN_ENABLE_TESTING == 1 -79: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -79: SEQAN_ASYNC_IO == 1 -6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Dynamic_Score_Matrix_Align type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -6: ************************************** -6: Total Tests: 24 -6: Skipped: 0 -6: Errors: 0 -6: ************************************** - 57/414 Test #6: test_test_align_simd_global_variable_length_sse4_host ............................. Passed 0.30 sec -49: test_graph_msa_guide_tree_upgma_avg OK -80: TEST SUITE test_misc -80: SEQAN_ENABLE_DEBUG == 1 -80: SEQAN_ENABLE_TESTING == 1 -80: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -80: SEQAN_ASYNC_IO == 1 -80: test_misc_terminal_get_terminal_size OK -80: test_misc_bit_twiddling_pop_count_char OK -80: test_misc_bit_twiddling_pop_count_signed_char OK -80: test_misc_bit_twiddling_pop_count_unsigned_char OK -80: test_misc_bit_twiddling_pop_count_short OK -80: test_misc_bit_twiddling_pop_count_signed_short OK -80: test_misc_bit_twiddling_pop_count_unsigned_short OK -80: test_misc_bit_twiddling_pop_count_int OK -80: test_misc_bit_twiddling_pop_count_signed_int OK -80: test_misc_bit_twiddling_pop_count_unsigned_int OK -80: test_misc_bit_twiddling_pop_count_long OK -80: test_misc_bit_twiddling_pop_count_signed_long OK -80: test_misc_bit_twiddling_pop_count_unsigned_long OK -80: test_misc_bit_twiddling_pop_count_long_long OK -80: test_misc_bit_twiddling_pop_count_signed_long_long OK -80: test_misc_bit_twiddling_pop_count_unsigned_long_long OK -80: test_misc_bit_twiddling_pop_count_int8 OK -80: test_misc_bit_twiddling_pop_count_uint8 OK -80: test_misc_bit_twiddling_pop_count_int16 OK -80: test_misc_bit_twiddling_pop_count_uint16 OK -80: test_misc_bit_twiddling_pop_count_int32 OK -80: test_misc_bit_twiddling_pop_count_uint32 OK -80: test_misc_bit_twiddling_pop_count_int64 OK -80: test_misc_bit_twiddling_pop_count_uint64 OK -80: Interval_Tree__IntervalTreeTest_QueryAtBoundary OK -80: Interval_Tree__IntervalTreeTest_IntervalTree__int OK -80: Interval_Tree__IntervalTreeTest_IntervalTreeFromIterator__int OK -80: Interval_Tree__IntervalTreeTest_NonFullLength__int OK -80: Interval_Tree__IntervalTreeTest_AddInterval__int OK -80: Interval_Tree__IntervalTreeTest_TreeStructure__int OK -80: Interval_Tree__IntervalTreeTest_FindIntervalExcludeTouching__int OK -80: Interval_Tree__IntervalTreeTest_FindNoInterval__int OK -80: Interval_Tree__IntervalTreeTest_GraphMap__int_ComputeCenter_StoreIntervals OK -80: Interval_Tree__IntervalTreeTest_FindIntervalsIntervals__int_ComputeCenter OK -80: test_misc_accumulators_average_accumulator_int_average OK -80: test_misc_accumulators_average_accumulator_int_count OK -80: test_misc_accumulators_average_accumulator_int_sum OK -80: test_misc_accumulators_average_accumulator_int_clear OK -80: test_misc_accumulators_average_accumulator_double_average OK -80: test_misc_accumulators_average_accumulator_double_count OK -80: test_misc_accumulators_average_accumulator_double_sum OK -80: test_misc_accumulators_average_accumulator_double_clear OK -80: test_misc_edit_environment_string_enumerator_hamming OK -80: test_misc_edit_environment_string_enumerator_iterator_hamming OK -80: test_misc_edit_environment_string_enumerator_edit OK -80: test_misc_edit_environment_string_enumerator_iterator_edit OK -80: ************************************** -80: Total Tests: 46 -80: Skipped: 0 -80: Errors: 0 -80: ************************************** - 58/414 Test #80: test_test_misc .................................................................... Passed 0.10 sec -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -16: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -16: ************************************** -16: Total Tests: 12 -16: Skipped: 0 -16: Errors: 0 -16: ************************************** - 59/414 Test #16: test_test_align_parallel_interface ................................................ Passed 0.27 sec -73: test_index_repeats_period_1_no_ns OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK 82: TEST SUITE test_modifier_cyclic_shape 82: SEQAN_ENABLE_DEBUG == 1 82: SEQAN_ENABLE_TESTING == 1 @@ -304584,7 +304850,6 @@ 82: Skipped: 0 82: Errors: 0 82: ************************************** - 60/414 Test #82: test_test_modifier_cyclic_shape ................................................... Passed 0.08 sec 83: TEST SUITE test_multiple_translation_units 83: SEQAN_ENABLE_DEBUG == 1 83: SEQAN_ENABLE_TESTING == 1 @@ -304595,13 +304860,13 @@ 83: Skipped: 0 83: Errors: 0 83: ************************************** - 61/414 Test #83: test_test_multiple_translation_units .............................................. Passed 0.06 sec 84: TEST SUITE test_parallel 84: SEQAN_ENABLE_DEBUG == 1 84: SEQAN_ENABLE_TESTING == 1 84: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" 84: SEQAN_ASYNC_IO == 1 84: PARALLELISM ENABLED (CTEST_FULL_OUTPUT) +84: test_parallel_atomic_inc OK 85: TEST SUITE test_parse_lm 85: SEQAN_ENABLE_DEBUG == 1 85: SEQAN_ENABLE_TESTING == 1 @@ -304618,7 +304883,6 @@ 85: Skipped: 0 85: Errors: 0 85: ************************************** - 62/414 Test #85: test_test_parse_lm ................................................................ Passed 0.05 sec 86: TEST SUITE test_pipe 86: SEQAN_ENABLE_DEBUG == 1 86: SEQAN_ENABLE_TESTING == 1 @@ -304636,7 +304900,6 @@ 87: Skipped: 0 87: Errors: 0 87: ************************************** - 63/414 Test #87: test_test_platform ................................................................ Passed 0.04 sec 88: TEST SUITE test_random 88: SEQAN_ENABLE_DEBUG == 1 88: SEQAN_ENABLE_TESTING == 1 @@ -304661,7 +304924,6 @@ 88: Skipped: 0 88: Errors: 0 88: ************************************** - 64/414 Test #88: test_test_random .................................................................. Passed 0.04 sec 89: TEST SUITE test_realign 89: SEQAN_ENABLE_DEBUG == 1 89: SEQAN_ENABLE_TESTING == 1 @@ -304669,6 +304931,8 @@ 89: SEQAN_ASYNC_IO == 1 89: test_realign_one_read_no_gaps OK 89: test_realign_one_read_with_gaps OK +89: test_realign_two_reads_stacked_at_beginning OK +89: test_realign_simple_case OK 90: TEST SUITE test_reduced_aminoacid 90: SEQAN_ENABLE_DEBUG == 1 90: SEQAN_ENABLE_TESTING == 1 @@ -304681,78 +304945,12 @@ 90: test_reduced_aminoacid_murphy5 OK 90: test_reduced_aminoacid_murphy10 OK 90: test_reduced_aminoacid_murphy10_moditerators OK -test 93 - Start 93: test_test_score - -93: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_score -93: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/score -93: Test timeout computed to be: 10000000 -test 94 - Start 94: test_test_seeds_combination - -94: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_combination -94: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -94: Test timeout computed to be: 10000000 -test 95 - Start 95: test_test_seeds_extension - -95: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_extension -95: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -95: Test timeout computed to be: 10000000 -test 96 - Start 96: test_test_seeds_global_chaining - -96: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_global_chaining -96: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -96: Test timeout computed to be: 10000000 -test 97 - Start 97: test_test_seeds_seed_base - -97: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_base -97: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -97: Test timeout computed to be: 10000000 -test 98 - Start 98: test_test_seeds_seed_chained - -98: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_chained -98: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -98: Test timeout computed to be: 10000000 -test 99 - Start 99: test_test_seeds_seed_diagonal - -99: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_diagonal -99: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -99: Test timeout computed to be: 10000000 -test 100 - Start 100: test_test_seeds_seed_set_base - -100: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_base -100: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -100: Test timeout computed to be: 10000000 -test 101 - Start 101: test_test_seeds_seed_set_unordered - -101: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_unordered -101: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -101: Test timeout computed to be: 10000000 -test 102 - Start 102: test_test_seeds_align_banded_chain_impl - -102: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_align_banded_chain_impl -102: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -102: Test timeout computed to be: 10000000 -test 103 - Start 103: test_test_seeds_banded_chain_alignment_interface - -103: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_banded_chain_alignment_interface -103: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds -103: Test timeout computed to be: 10000000 -test 104 - Start 104: test_test_seq_io - -104: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seq_io -104: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io -104: Test timeout computed to be: 10000000 +90: test_reduced_aminoacid_murphy10_modview_fmindex OK +90: ************************************** +90: Total Tests: 8 +90: Skipped: 0 +90: Errors: 0 +90: ************************************** 91: TEST SUITE test_rna_io 91: SEQAN_ENABLE_DEBUG == 1 91: SEQAN_ENABLE_TESTING == 1 @@ -304776,52 +304974,6 @@ 91: Skipped: 0 91: Errors: 0 91: ************************************** -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetValue type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -77: test_journaled_string_tree_traverser_init OK -77: test_journaled_string_tree_traverser_context_size OK -77: test_journaled_string_tree_traverser_branch_size OK -77: test_journaled_string_tree_traverser_at_end OK -77: test_journaled_string_tree_traverser_is_base OK 92: TEST SUITE test_roi_io 92: SEQAN_ENABLE_DEBUG == 1 92: SEQAN_ENABLE_TESTING == 1 @@ -304838,33 +304990,6 @@ 92: Skipped: 0 92: Errors: 0 92: ************************************** -89: test_realign_two_reads_stacked_at_beginning OK -7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Affine_Score type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: SimdAlignTestCommon_Dynamic_Score_Matrix type parameter std::tuple >, seqan::Tag, seqan::Tag > OK -7: ************************************** -7: Total Tests: 24 -7: Skipped: 0 -7: Errors: 0 -7: ************************************** -90: test_reduced_aminoacid_murphy10_modview_fmindex OK -90: ************************************** -90: Total Tests: 8 -90: Skipped: 0 -90: Errors: 0 -90: ************************************** -49: test_graph_msa_guide_tree_upgma_min OK -73: test_index_repeats_period_1_many_ns OK -73: ************************************** -73: Total Tests: 3 -73: Skipped: 0 -73: Errors: 0 -73: ************************************** -21: test_align_parallel_wavefront_multiple_global_alignment OK -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK 93: TEST SUITE test_score 93: SEQAN_ENABLE_DEBUG == 1 93: SEQAN_ENABLE_TESTING == 1 @@ -304883,220 +305008,58 @@ 93: Skipped: 0 93: Errors: 0 93: ************************************** -94: TEST SUITE test_seeds_combination -94: SEQAN_ENABLE_DEBUG == 1 -94: SEQAN_ENABLE_TESTING == 1 -94: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -94: SEQAN_ASYNC_IO == 1 -94: test_seeds_combination_seeds_combineable_merge_chained OK -94: test_seeds_combination_seeds_combineable_simple_chaining_chained OK -94: test_seeds_combination_seeds_combineable_simple_chaos_chaining_chained OK -94: test_seeds_combination_combine_seeds_merge_chained OK -94: test_seeds_combination_combine_seeds_simple_chaining_chained OK -94: test_seeds_combination_combine_seeds_simple_chaos_chaining_chained OK -94: ************************************** -94: Total Tests: 6 -94: Skipped: 0 -94: Errors: 0 -94: ************************************** -95: TEST SUITE test_seeds_extension -95: SEQAN_ENABLE_DEBUG == 1 -95: SEQAN_ENABLE_TESTING == 1 -95: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -95: SEQAN_ASYNC_IO == 1 -95: test_seeds_extension_match_extension_simple OK -95: test_seeds_extension_ungapped_xdrop_extension_simple OK -95: test_seeds_extension_gapped_xdrop_extension_simple OK -95: test_seeds_extension_match_extension_chained OK -95: test_seeds_extension_ungapped_xdrop_extension_chained OK -95: ************************************** -95: Total Tests: 5 -95: Skipped: 0 -95: Errors: 0 -95: ************************************** -96: TEST SUITE test_seeds_global_chaining -96: SEQAN_ENABLE_DEBUG == 1 -96: SEQAN_ENABLE_TESTING == 1 -96: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -96: SEQAN_ASYNC_IO == 1 -96: test_seeds_global_chaining_sparse_length OK -96: ************************************** -96: Total Tests: 1 -96: Skipped: 0 -96: Errors: 0 -96: ************************************** -97: TEST SUITE test_seeds_seed_base -97: SEQAN_ENABLE_DEBUG == 1 -97: SEQAN_ENABLE_TESTING == 1 -97: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -97: SEQAN_ASYNC_IO == 1 -97: test_seeds_seed_base_constructors_simple OK -97: test_seeds_seed_base_metafunctions_simple OK -97: test_seeds_seed_base_getters_setters_simple OK -97: test_seeds_seed_base_basic_functions_simple OK -97: test_seeds_seed_base_assign_simple OK -97: test_seeds_seed_base_constructors_chained OK -97: test_seeds_seed_base_metafunctions_chained OK -97: test_seeds_seed_base_getters_setters_chained OK -97: test_seeds_seed_base_basic_functions_chained OK -97: test_seeds_seed_base_assign_chained OK -97: ************************************** -97: Total Tests: 10 -97: Skipped: 0 -97: Errors: 0 -97: ************************************** -98: TEST SUITE test_seeds_seed_chained -98: SEQAN_ENABLE_DEBUG == 1 -98: SEQAN_ENABLE_TESTING == 1 -98: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -98: SEQAN_ASYNC_IO == 1 -98: test_seeds_seed_chained_assign OK -98: test_seeds_seed_chained_metafunctions OK -98: test_seeds_seed_chained_append_diagonal OK -98: test_seeds_seed_chained_truncate_diagonals OK -98: test_seeds_seed_chained_iterators OK -98: test_seeds_seed_chained_front_back OK -98: ************************************** -98: Total Tests: 6 -98: Skipped: 0 -98: Errors: 0 -98: ************************************** -99: TEST SUITE test_seeds_seed_diagonal -99: SEQAN_ENABLE_DEBUG == 1 -99: SEQAN_ENABLE_TESTING == 1 -99: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -99: SEQAN_ASYNC_IO == 1 -99: test_seeds_seed_diagonal_constructors OK -99: test_seeds_seed_diagonal_metafunctions OK -99: ************************************** -99: Total Tests: 2 -99: Skipped: 0 -99: Errors: 0 -99: ************************************** -100: TEST SUITE test_seeds_seed_set_base -100: SEQAN_ENABLE_DEBUG == 1 -100: SEQAN_ENABLE_TESTING == 1 -100: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -100: SEQAN_ASYNC_IO == 1 -100: test_seeds_seed_set_base_container_functions_simple_unordered OK -100: test_seeds_seed_set_base_clear_simple OK -100: test_seeds_seed_set_base_clear_chained OK -100: test_seeds_seed_set_base_add_seed_single_threshold_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_single_threshold_reached_score_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_score_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_right_merging_possible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_impossible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_scored_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_scored_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_simple_chain_right_chaining_possible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_impossible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_not_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_not_reached_scored_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_reached_scored_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_right_chaining_possible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_impossible_no_threshold_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_length_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_scored_simple_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_scored_simple_unordered OK -100: test_seeds_seed_set_base_container_functions_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_single_threshold_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_single_threshold_reached_score_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_score_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_right_merging_possible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_impossible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_scored_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_scored_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chained_chain_right_chaining_possible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_impossible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_not_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_not_reached_scored_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_reached_scored_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_right_chaining_possible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_impossible_no_threshold_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_length_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_scored_chained_unordered OK -100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_scored_chained_unordered OK -100: ************************************** -100: Total Tests: 54 -100: Skipped: 0 -100: Errors: 0 -100: ************************************** -101: TEST SUITE test_seeds_seed_set -101: SEQAN_ENABLE_DEBUG == 1 -101: SEQAN_ENABLE_TESTING == 1 -101: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -101: SEQAN_ASYNC_IO == 1 -101: test_seeds_seed_set_container_functions_unordered OK -101: ************************************** -101: Total Tests: 1 -101: Skipped: 0 -101: Errors: 0 -101: ************************************** -102: TEST SUITE test_banded_chain_impl -102: SEQAN_ENABLE_DEBUG == 1 -102: SEQAN_ENABLE_TESTING == 1 -102: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -102: SEQAN_ASYNC_IO == 1 -102: test_banded_chain_alignment_empty_set_linear OK -102: test_banded_chain_alignment_empty_set_affine OK -102: test_banded_chain_alignment_one_seed_linear OK -102: test_banded_chain_alignment_one_seed_affine OK -103: TEST SUITE test_banded_chain_alignment_interface -103: SEQAN_ENABLE_DEBUG == 1 -103: SEQAN_ENABLE_TESTING == 1 -103: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -103: SEQAN_ASYNC_IO == 1 -103: test_banded_chain_alignment_align_linear_global_one_score OK -103: test_banded_chain_alignment_align_linear_global_two_scores OK -103: test_banded_chain_alignment_align_linear_semi_one_score OK -103: test_banded_chain_alignment_align_linear_semi_two_scores OK -103: test_banded_chain_alignment_align_linear_overlap_one_score OK -103: test_banded_chain_alignment_align_linear_overlap_two_scores OK -103: test_banded_chain_alignment_align_affine_global_one_score OK -103: test_banded_chain_alignment_align_affine_global_two_scores OK - 65/414 Test #7: test_test_align_simd_global_variable_length_avx2_host ............................. Passed 0.35 sec - 66/414 Test #73: test_test_index_repeats ........................................................... Passed 0.19 sec - 67/414 Test #90: test_reduced_aminoacid ............................................................ Passed 0.07 sec - 68/414 Test #91: test_test_rna_io .................................................................. Passed 0.07 sec - 69/414 Test #92: test_test_roi_io .................................................................. Passed 0.06 sec - 70/414 Test #93: test_test_score ................................................................... Passed 0.05 sec - 71/414 Test #94: test_test_seeds_combination ....................................................... Passed 0.05 sec - 72/414 Test #95: test_test_seeds_extension ......................................................... Passed 0.04 sec - 73/414 Test #96: test_test_seeds_global_chaining ................................................... Passed 0.04 sec - 74/414 Test #97: test_test_seeds_seed_base ......................................................... Passed 0.04 sec - 75/414 Test #98: test_test_seeds_seed_chained ...................................................... Passed 0.04 sec - 76/414 Test #99: test_test_seeds_seed_diagonal ..................................................... Passed 0.03 sec - 77/414 Test #100: test_test_seeds_seed_set_base ..................................................... Passed 0.03 sec - 78/414 Test #101: test_test_seeds_seed_set_unordered ................................................ Passed 0.03 sec -17: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -102: test_banded_chain_alignment_two_seeds_linear OK -102: test_banded_chain_alignment_two_seeds_affine OK -104: TEST SUITE test_seq_io -104: SEQAN_ENABLE_DEBUG == 1 -104: SEQAN_ENABLE_TESTING == 1 -104: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -104: SEQAN_ASYNC_IO == 1 -104: test_seq_io_sequence_file_recognize_file_type_gz_fasta OK -104: test_seq_io_sequence_file_recognize_file_type_bz2_fasta OK -104: test_seq_io_sequence_file_recognize_file_format_text_fasta OK -104: test_seq_io_sequence_file_recognize_file_format_text_fastq OK + 57/414 Test #17: test_test_align_parallel_interface_sse4_host ...................................... Passed 1.18 sec + 58/414 Test #18: test_test_align_parallel_interface_avx2_host ...................................... Passed 1.16 sec + 59/414 Test #20: test_test_align_parallel_algorithm_sse4_host ...................................... Passed 1.13 sec + 60/414 Test #44: test_test_consensus_v2 ............................................................ Passed 0.81 sec + 61/414 Test #45: test_test_find .................................................................... Passed 0.79 sec + 62/414 Test #55: test_test_index_creation .......................................................... Passed 0.68 sec + 63/414 Test #61: test_test_index_sa_bwtwalk ........................................................ Passed 0.62 sec + 64/414 Test #76: test_test_delta_map ............................................................... Passed 0.42 sec + 65/414 Test #80: test_test_misc .................................................................... Passed 0.33 sec + 66/414 Test #81: test_test_modifier ................................................................ Passed 0.32 sec + 67/414 Test #82: test_test_modifier_cyclic_shape ................................................... Passed 0.31 sec + 68/414 Test #83: test_test_multiple_translation_units .............................................. Passed 0.27 sec + 69/414 Test #85: test_test_parse_lm ................................................................ Passed 0.20 sec + 70/414 Test #87: test_test_platform ................................................................ Passed 0.18 sec + 71/414 Test #88: test_test_random .................................................................. Passed 0.17 sec + 72/414 Test #92: test_test_roi_io .................................................................. Passed 0.12 sec +test 99 + Start 99: test_test_seeds_seed_diagonal + +99: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_diagonal +99: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +99: Test timeout computed to be: 10000000 +test 100 + Start 100: test_test_seeds_seed_set_base + +100: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_base +100: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +100: Test timeout computed to be: 10000000 +test 101 + Start 101: test_test_seeds_seed_set_unordered + +101: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_seed_set_unordered +101: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +101: Test timeout computed to be: 10000000 +test 102 + Start 102: test_test_seeds_align_banded_chain_impl + +102: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_align_banded_chain_impl +102: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +102: Test timeout computed to be: 10000000 +test 103 + Start 103: test_test_seeds_banded_chain_alignment_interface + +103: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seeds_banded_chain_alignment_interface +103: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seeds +103: Test timeout computed to be: 10000000 +test 104 + Start 104: test_test_seq_io + +104: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_seq_io +104: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/seq_io +104: Test timeout computed to be: 10000000 test 105 Start 105: test_test_sequence @@ -305157,6 +305120,95 @@ 114: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_store 114: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/store 114: Test timeout computed to be: 10000000 + 73/414 Test #49: test_test_graph_msa ............................................................... Passed 0.93 sec + 74/414 Test #77: test_journaled_string_tree_traverser .............................................. Passed 0.57 sec + 75/414 Test #90: test_reduced_aminoacid ............................................................ Passed 0.33 sec + 76/414 Test #91: test_test_rna_io .................................................................. Passed 0.32 sec + 77/414 Test #93: test_test_score ................................................................... Passed 0.29 sec + 78/414 Test #73: test_test_index_repeats ........................................................... Passed 0.66 sec +94: TEST SUITE test_seeds_combination +94: SEQAN_ENABLE_DEBUG == 1 +94: SEQAN_ENABLE_TESTING == 1 +94: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +94: SEQAN_ASYNC_IO == 1 +94: test_seeds_combination_seeds_combineable_merge_chained OK +94: test_seeds_combination_seeds_combineable_simple_chaining_chained OK +94: test_seeds_combination_seeds_combineable_simple_chaos_chaining_chained OK +94: test_seeds_combination_combine_seeds_merge_chained OK +94: test_seeds_combination_combine_seeds_simple_chaining_chained OK +94: test_seeds_combination_combine_seeds_simple_chaos_chaining_chained OK +94: ************************************** +94: Total Tests: 6 +94: Skipped: 0 +94: Errors: 0 +94: ************************************** + 79/414 Test #94: test_test_seeds_combination ....................................................... Passed 0.28 sec +95: TEST SUITE test_seeds_extension +95: SEQAN_ENABLE_DEBUG == 1 +95: SEQAN_ENABLE_TESTING == 1 +95: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +95: SEQAN_ASYNC_IO == 1 +95: test_seeds_extension_match_extension_simple OK +95: test_seeds_extension_ungapped_xdrop_extension_simple OK +95: test_seeds_extension_gapped_xdrop_extension_simple OK +95: test_seeds_extension_match_extension_chained OK +95: test_seeds_extension_ungapped_xdrop_extension_chained OK +95: ************************************** +95: Total Tests: 5 +95: Skipped: 0 +95: Errors: 0 +95: ************************************** + 80/414 Test #95: test_test_seeds_extension ......................................................... Passed 0.24 sec +96: TEST SUITE test_seeds_global_chaining +96: SEQAN_ENABLE_DEBUG == 1 +96: SEQAN_ENABLE_TESTING == 1 +96: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +96: SEQAN_ASYNC_IO == 1 +96: test_seeds_global_chaining_sparse_length OK +96: ************************************** +96: Total Tests: 1 +96: Skipped: 0 +96: Errors: 0 +96: ************************************** + 81/414 Test #96: test_test_seeds_global_chaining ................................................... Passed 0.22 sec +97: TEST SUITE test_seeds_seed_base +97: SEQAN_ENABLE_DEBUG == 1 +97: SEQAN_ENABLE_TESTING == 1 +97: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +97: SEQAN_ASYNC_IO == 1 +97: test_seeds_seed_base_constructors_simple OK +97: test_seeds_seed_base_metafunctions_simple OK +97: test_seeds_seed_base_getters_setters_simple OK +97: test_seeds_seed_base_basic_functions_simple OK +97: test_seeds_seed_base_assign_simple OK +97: test_seeds_seed_base_constructors_chained OK +97: test_seeds_seed_base_metafunctions_chained OK +97: test_seeds_seed_base_getters_setters_chained OK +97: test_seeds_seed_base_basic_functions_chained OK +97: test_seeds_seed_base_assign_chained OK +97: ************************************** +97: Total Tests: 10 +97: Skipped: 0 +97: Errors: 0 +97: ************************************** + 82/414 Test #97: test_test_seeds_seed_base ......................................................... Passed 0.21 sec +98: TEST SUITE test_seeds_seed_chained +98: SEQAN_ENABLE_DEBUG == 1 +98: SEQAN_ENABLE_TESTING == 1 +98: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +98: SEQAN_ASYNC_IO == 1 +98: test_seeds_seed_chained_assign OK +98: test_seeds_seed_chained_metafunctions OK +98: test_seeds_seed_chained_append_diagonal OK +98: test_seeds_seed_chained_truncate_diagonals OK +98: test_seeds_seed_chained_iterators OK +98: test_seeds_seed_chained_front_back OK +98: ************************************** +98: Total Tests: 6 +98: Skipped: 0 +98: Errors: 0 +98: ************************************** + 83/414 Test #98: test_test_seeds_seed_chained ...................................................... Passed 0.20 sec test 115 Start 115: test_test_stream @@ -305181,25 +305233,182 @@ 118: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_translation 118: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/translation 118: Test timeout computed to be: 10000000 -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK +test 119 + Start 119: test_ucsc_io + +119: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_ucsc_io +119: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io +119: Test timeout computed to be: 10000000 +test 120 + Start 120: test_test_vcf_io + +120: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_vcf_io +120: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io +120: Test timeout computed to be: 10000000 +test 121 + Start 121: test_demo_dox_align_align + +121: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout" +121: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +121: Test timeout computed to be: 10000000 +test 122 + Start 122: test_demo_dox_align_compute_alignment_stats + +122: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp.stdout" +122: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +122: Test timeout computed to be: 10000000 +test 123 + Start 123: test_demo_dox_align_gaps_example + +123: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout" +123: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +123: Test timeout computed to be: 10000000 +test 124 + Start 124: test_demo_dox_align_global_alignment_banded + +124: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout" +124: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +124: Test timeout computed to be: 10000000 +test 125 + Start 125: test_demo_dox_align_global_alignment_unbanded + +125: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout" +125: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +125: Test timeout computed to be: 10000000 +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +89: test_realign_simple_gaps OK +89: test_realign_simple_insert OK +89: test_realign_simple_insert_window OK +89: test_realign_simple_insert_window_tight_left OK +89: test_realign_simple_insert_window_tight_right OK +89: test_realign_tricky_insert_window_cuts OK +89: ************************************** +89: Total Tests: 10 +89: Skipped: 0 +89: Errors: 0 +89: ************************************** +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +84: test_parallel_atomic_dec OK +84: test_parallel_atomic_add OK +99: TEST SUITE test_seeds_seed_diagonal +99: SEQAN_ENABLE_DEBUG == 1 +99: SEQAN_ENABLE_TESTING == 1 +99: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +99: SEQAN_ASYNC_IO == 1 +99: test_seeds_seed_diagonal_constructors OK +99: test_seeds_seed_diagonal_metafunctions OK +99: ************************************** +99: Total Tests: 2 +99: Skipped: 0 +99: Errors: 0 +99: ************************************** +100: TEST SUITE test_seeds_seed_set_base +100: SEQAN_ENABLE_DEBUG == 1 +100: SEQAN_ENABLE_TESTING == 1 +100: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +100: SEQAN_ASYNC_IO == 1 +100: test_seeds_seed_set_base_container_functions_simple_unordered OK +100: test_seeds_seed_set_base_clear_simple OK +100: test_seeds_seed_set_base_clear_chained OK +100: test_seeds_seed_set_base_add_seed_single_threshold_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_single_threshold_reached_score_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_score_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_right_merging_possible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_impossible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_scored_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_scored_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_simple_chain_right_chaining_possible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_impossible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_not_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_not_reached_scored_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_simple_chain_left_chaining_possible_threshold_reached_scored_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_right_chaining_possible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_impossible_no_threshold_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_length_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_scored_simple_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_scored_simple_unordered OK +100: test_seeds_seed_set_base_container_functions_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_single_threshold_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_single_threshold_reached_score_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_single_threshold_not_reached_score_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_right_merging_possible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_impossible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_not_reached_scored_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_merge_left_merging_possible_threshold_reached_scored_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chained_chain_right_chaining_possible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_impossible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_not_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_not_reached_scored_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chained_chain_left_chaining_possible_threshold_reached_scored_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_right_chaining_possible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_impossible_no_threshold_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_length_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_not_reached_scored_chained_unordered OK +100: test_seeds_seed_set_base_add_seed_chaos_left_chaining_possible_threshold_reached_scored_chained_unordered OK +100: ************************************** +100: Total Tests: 54 +100: Skipped: 0 +100: Errors: 0 +100: ************************************** +101: TEST SUITE test_seeds_seed_set +101: SEQAN_ENABLE_DEBUG == 1 +101: SEQAN_ENABLE_TESTING == 1 +101: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +101: SEQAN_ASYNC_IO == 1 +101: test_seeds_seed_set_container_functions_unordered OK +101: ************************************** +101: Total Tests: 1 +101: Skipped: 0 +101: Errors: 0 +101: ************************************** +102: TEST SUITE test_banded_chain_impl +102: SEQAN_ENABLE_DEBUG == 1 +102: SEQAN_ENABLE_TESTING == 1 +102: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +102: SEQAN_ASYNC_IO == 1 +102: test_banded_chain_alignment_empty_set_linear OK +102: test_banded_chain_alignment_empty_set_affine OK +102: test_banded_chain_alignment_one_seed_linear OK +102: test_banded_chain_alignment_one_seed_affine OK +102: test_banded_chain_alignment_two_seeds_linear OK +102: test_banded_chain_alignment_two_seeds_affine OK 102: test_banded_chain_alignment_three_seeds_linear OK 102: test_banded_chain_alignment_three_seeds_affine OK 102: test_banded_chain_alignment_special_seeds_linear OK @@ -305213,43 +305422,19 @@ 102: Skipped: 0 102: Errors: 0 102: ************************************** -104: test_tag_select_intersect OK -104: test_seq_io_sequence_file_read_record_text_fasta OK -104: test_seq_io_sequence_file_read_all_text_fasta OK -104: test_seq_io_sequence_file_write_record_text_fasta OK -104: test_seq_io_sequence_file_write_all_text_fasta OK -104: test_seq_io_sequence_file_write_record_text_fastq_no_qual OK -104: test_seq_io_sequence_file_write_record_text_fastq_with_qual OK -104: test_seq_io_sequence_file_write_all_text_fastq_no_qual OK -104: test_seq_io_sequence_file_write_all_text_fastq_with_qual OK -104: test_seq_io_sequence_file_isOpen_fileIn OK -104: test_seq_io_sequence_file_isOpen_fileOut OK -104: test_seq_io_genomic_region_default_constructed OK -104: test_seq_io_genomic_region_from_string OK -104: test_seq_io_genomic_region_clear OK -104: test_seq_io_genomic_region_parse_chrom OK -104: test_seq_io_genomic_region_parse_chrom_begin OK -104: test_seq_io_genomic_region_parse_chrom_begin_end OK -104: test_seq_io_genomic_region_to_string_interval OK -104: test_seq_io_genomic_region_to_string_point OK -104: test_seq_io_genomic_fai_index_build OK -104: test_seq_io_genomic_fai_index_write OK -104: test_seq_io_genomic_fai_index_read OK -104: test_seq_io_genomic_fai_index_read_sequence OK -104: test_seq_io_genomic_fai_index_read_region OK -104: test_stream_read_embl_single_char_array_stream OK -104: test_stream_read_embl_record_char_array_stream OK -104: test_stream_read_embl_single_mmap OK -104: test_stream_read_embl_single_batch_mmap OK -104: test_stream_read_genbank_single_char_array_stream OK -104: test_stream_read_genbank_record_char_array_stream OK -104: test_stream_read_genbank_single_mmap OK -104: test_stream_read_genbank_single_batch_mmap OK -104: test_seq_io_bam_file_sam_read_sequences OK -104: test_seq_io_bam_file_sam_read_sequences_and_qualities OK -104: test_seq_io_bam_file_sam_write_sequences OK -104: test_seq_io_bam_file_sam_write_sequences_and_qualities OK -84: test_parallel_atomic_inc OK +103: TEST SUITE test_banded_chain_alignment_interface +103: SEQAN_ENABLE_DEBUG == 1 +103: SEQAN_ENABLE_TESTING == 1 +103: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +103: SEQAN_ASYNC_IO == 1 +103: test_banded_chain_alignment_align_linear_global_one_score OK +103: test_banded_chain_alignment_align_linear_global_two_scores OK +103: test_banded_chain_alignment_align_linear_semi_one_score OK +103: test_banded_chain_alignment_align_linear_semi_two_scores OK +103: test_banded_chain_alignment_align_linear_overlap_one_score OK +103: test_banded_chain_alignment_align_linear_overlap_two_scores OK +103: test_banded_chain_alignment_align_affine_global_one_score OK +103: test_banded_chain_alignment_align_affine_global_two_scores OK 103: test_banded_chain_alignment_align_affine_semi_one_score OK 103: test_banded_chain_alignment_align_affine_semi_two_scores OK 103: test_banded_chain_alignment_align_affine_overlap_one_score OK @@ -305296,45 +305481,53 @@ 103: Skipped: 0 103: Errors: 0 103: ************************************** -77: test_journaled_string_tree_traverser_advance OK -77: test_journaled_string_tree_traverser_context_iterator OK -77: test_journaled_string_tree_traverser_container OK -77: test_journaled_string_tree_traverser_basic_traversal OK -77: ************************************** -77: Total Tests: 11 -77: Skipped: 0 -77: Errors: 0 -77: ************************************** -89: test_realign_simple_case OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Semi_Global_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -19: test_align_parallel_wavefront_multiple_global_alignment OK -19: ************************************** -19: Total Tests: 2 -19: Skipped: 0 -19: Errors: 0 -19: ************************************** -49: test_graph_msa_guide_tree_upgma_max OK -49: test_distances OK -49: test_libraries OK -49: test_external_libraries OK -49: test_triplet_extension OK -49: test_sop OK -49: test_progressive OK -49: test_reversable_fragments OK -49: ************************************** -49: Total Tests: 12 -49: Skipped: 0 -49: Errors: 0 -49: ************************************** -61: testBWTWalk OK -61: ************************************** -61: Total Tests: 1 -61: Skipped: 0 -61: Errors: 0 -61: ************************************** +104: TEST SUITE test_seq_io +104: SEQAN_ENABLE_DEBUG == 1 +104: SEQAN_ENABLE_TESTING == 1 +104: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +104: SEQAN_ASYNC_IO == 1 +104: test_seq_io_sequence_file_recognize_file_type_gz_fasta OK +104: test_seq_io_sequence_file_recognize_file_type_bz2_fasta OK +104: test_seq_io_sequence_file_recognize_file_format_text_fasta OK +104: test_seq_io_sequence_file_recognize_file_format_text_fastq OK +104: test_tag_select_intersect OK +104: test_seq_io_sequence_file_read_record_text_fasta OK +104: test_seq_io_sequence_file_read_all_text_fasta OK +104: test_seq_io_sequence_file_write_record_text_fasta OK +104: test_seq_io_sequence_file_write_all_text_fasta OK +104: test_seq_io_sequence_file_write_record_text_fastq_no_qual OK +104: test_seq_io_sequence_file_write_record_text_fastq_with_qual OK +104: test_seq_io_sequence_file_write_all_text_fastq_no_qual OK +104: test_seq_io_sequence_file_write_all_text_fastq_with_qual OK +104: test_seq_io_sequence_file_isOpen_fileIn OK +104: test_seq_io_sequence_file_isOpen_fileOut OK +104: test_seq_io_genomic_region_default_constructed OK +104: test_seq_io_genomic_region_from_string OK +104: test_seq_io_genomic_region_clear OK +104: test_seq_io_genomic_region_parse_chrom OK +104: test_seq_io_genomic_region_parse_chrom_begin OK +104: test_seq_io_genomic_region_parse_chrom_begin_end OK +104: test_seq_io_genomic_region_to_string_interval OK +104: test_seq_io_genomic_region_to_string_point OK +104: test_seq_io_genomic_fai_index_build OK +104: test_seq_io_genomic_fai_index_write OK +104: test_seq_io_genomic_fai_index_read OK +104: test_seq_io_genomic_fai_index_read_sequence OK +104: test_seq_io_genomic_fai_index_read_region OK +104: test_stream_read_embl_single_char_array_stream OK +104: test_stream_read_embl_record_char_array_stream OK +104: test_stream_read_embl_single_mmap OK +104: test_stream_read_embl_single_batch_mmap OK +104: test_stream_read_genbank_single_char_array_stream OK +104: test_stream_read_genbank_record_char_array_stream OK +104: test_stream_read_genbank_single_mmap OK +104: test_stream_read_genbank_single_batch_mmap OK +104: test_seq_io_bam_file_sam_read_sequences OK +104: test_seq_io_bam_file_sam_read_sequences_and_qualities OK +104: test_seq_io_bam_file_sam_write_sequences OK +104: test_seq_io_bam_file_sam_write_sequences_and_qualities OK +104: test_seq_io_bam_file_bam_read_sequences OK +104: test_seq_io_bam_file_bam_read_sequences_and_qualities OK 105: TEST SUITE Sequence tests 105: SEQAN_ENABLE_DEBUG == 1 105: SEQAN_ENABLE_TESTING == 1 @@ -305377,20 +305570,20 @@ 105: Suffix OK 105: ticket317 OK 105: ticket848 OK -105: DEFAULT CONSTRUCTING TestContainer 0x7ffef9aeab50 -105: string.data_begin 0x5557227d4d70 -105: COPY CONSTRUCTING TestContainer 0x7ffef9aeab70 -105: other 0x7ffef9aeab50 -105: string.data_begin 0x5557227d5a20 -105: COPY CONSTRUCTING TestContainer 0x5557227d52f0 -105: other 0x7ffef9aeab70 -105: string.data_begin 0x5557227d5ab0 -105: DECONSTRUCTING TestContainer 0x7ffef9aeab70 -105: string.data_begin 0x5557227d5a20 -105: DECONSTRUCTING TestContainer 0x7ffef9aeab50 -105: string.data_begin 0x5557227d4d70 -105: DECONSTRUCTING TestContainer 0x5557227d52f0 -105: string.data_begin 0x5557227d5ab0 +105: DEFAULT CONSTRUCTING TestContainer 0x7ffda110d440 +105: string.data_begin 0x5588356a4d70 +105: COPY CONSTRUCTING TestContainer 0x7ffda110d460 +105: other 0x7ffda110d440 +105: string.data_begin 0x5588356a5a20 +105: COPY CONSTRUCTING TestContainer 0x5588356a52f0 +105: other 0x7ffda110d460 +105: string.data_begin 0x5588356a5ab0 +105: DECONSTRUCTING TestContainer 0x7ffda110d460 +105: string.data_begin 0x5588356a5a20 +105: DECONSTRUCTING TestContainer 0x7ffda110d440 +105: string.data_begin 0x5588356a4d70 +105: DECONSTRUCTING TestContainer 0x5588356a52f0 +105: string.data_begin 0x5588356a5ab0 105: test_find_motif_memory_leak_ticket_364 OK 105: ticket901 OK 105: ticket1108 OK @@ -305454,49 +305647,6 @@ 106: StringTestCommon_CopyConstructible type parameter seqan::String >, 4194304u, 2u> > > OK 106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::MMap >, unsigned long> > > OK 106: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter seqan::String > OK -106: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_CopyConstructible type parameter std::vector, std::allocator > > OK -106: StringTestCommon_CopyConstructible type parameter std::vector > OK -106: StringTestCommon_CopyConstructible type parameter std::vector > OK -106: StringTestCommon_CopyConstructible type parameter std::vector > OK -106: StringTestCommon_CopyConstructible type parameter std::deque, std::allocator > > OK -106: StringTestCommon_CopyConstructible type parameter std::deque > OK -106: StringTestCommon_CopyConstructible type parameter std::deque > OK -106: StringTestCommon_CopyConstructible type parameter std::deque > OK -106: StringTestCommon_CopyConstructible type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_CopyConstructible type parameter std::forward_list > OK -106: StringTestCommon_CopyConstructible type parameter std::forward_list > OK -106: StringTestCommon_CopyConstructible type parameter std::forward_list > OK -106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK -106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK -106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK -106: StringTestCommon_LessOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_LessOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK 107: TEST SUITE tests 107: SEQAN_ENABLE_DEBUG == 1 107: SEQAN_ENABLE_TESTING == 1 @@ -306871,278 +307021,93 @@ 113: Skipped: 0 113: Errors: 0 113: ************************************** -114: TEST SUITE test_store -114: SEQAN_ENABLE_DEBUG == 1 -114: SEQAN_ENABLE_TESTING == 1 -114: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -114: SEQAN_ASYNC_IO == 1 -114: test_store_io_read_ucsc_known_genes OK -114: test_store_io_read_ucsc_known_genes_and_isoforms OK -114: test_store_io_write_ucsc_known_genes OK -114: test_store_io_read_gff OK -114: test_store_io_write_gff OK -114: test_store_io_read_gtf OK -114: test_store_io_write_gtf OK -114: test_store_io_readwrite_amos OK -114: test_store_io_read_amos OK -115: TEST SUITE tests -115: SEQAN_ENABLE_DEBUG == 1 -115: SEQAN_ENABLE_TESTING == 1 -115: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -115: SEQAN_ASYNC_IO == 1 -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK -115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK -115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, short, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, int, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, long, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, long long, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned short, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned int, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned long, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned long long, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, float, void> OK -115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, double, void> OK -115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, short, void> OK -115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, int, void> OK -115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, long, void> OK -115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, long long, void> OK -115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, float, void> OK -115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, double, void> OK -115: AppendFloatingPointTest_AppendNumber type parameter seqan::Pair >, float, void> OK -115: AppendFloatingPointTest_AppendNumber type parameter seqan::Pair >, double, void> OK -115: TokenizationTest_read type parameter seqan::String > OK -115: TokenizationTest_read type parameter std::basic_ifstream > OK -115: TokenizationTest_read type parameter std::basic_fstream > OK -115: TokenizationTest_read type parameter seqan::Iter >, seqan::StreamIterator > > OK -115: TokenizationTest_ReadIgnoring type parameter seqan::String > OK -115: TokenizationTest_ReadIgnoring type parameter std::basic_ifstream > OK -115: TokenizationTest_ReadIgnoring type parameter std::basic_fstream > OK -115: TokenizationTest_ReadIgnoring type parameter seqan::Iter >, seqan::StreamIterator > > OK -115: TokenizationTest_ReadUntil_ReadLine type parameter seqan::String > OK -115: TokenizationTest_ReadUntil_ReadLine type parameter std::basic_ifstream > OK -115: TokenizationTest_ReadUntil_ReadLine type parameter std::basic_fstream > OK -115: TokenizationTest_ReadUntil_ReadLine type parameter seqan::Iter >, seqan::StreamIterator > > OK -115: TokenizationTest_SkipUntil type parameter seqan::String > OK -115: TokenizationTest_SkipUntil type parameter std::basic_ifstream > OK -115: TokenizationTest_SkipUntil type parameter std::basic_fstream > OK -115: TokenizationTest_SkipUntil type parameter seqan::Iter >, seqan::StreamIterator > > OK -115: TokenizationTest_SkipLine type parameter seqan::String > OK -115: TokenizationTest_SkipLine type parameter std::basic_ifstream > OK -115: TokenizationTest_SkipLine type parameter std::basic_fstream > OK -115: TokenizationTest_SkipLine type parameter seqan::Iter >, seqan::StreamIterator > > OK -115: FileStreamTest_ReadSimpleUsage type parameter seqan::Async OK -115: FileStreamTest_ReadSimpleUsage type parameter seqan::MMap >, unsigned long> > OK -116: TEST SUITE test_find_swift -116: SEQAN_ENABLE_DEBUG == 1 -116: SEQAN_ENABLE_TESTING == 1 -116: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -116: SEQAN_ASYNC_IO == 1 -116: test_find_swift OK -116: test_longest_epsMatch OK -116: test_split_xDrop_align OK -116: ************************************** -116: Total Tests: 3 -116: Skipped: 0 -116: Errors: 0 -116: ************************************** -117: TEST SUITE test_tabix_io -117: SEQAN_ENABLE_DEBUG == 1 -117: SEQAN_ENABLE_TESTING == 1 -117: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -117: SEQAN_ASYNC_IO == 1 -118: TEST SUITE test_translation -118: SEQAN_ENABLE_DEBUG == 1 -118: SEQAN_ENABLE_TESTING == 1 -118: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -118: SEQAN_ASYNC_IO == 1 -118: test_translation_onestring_singleframe_allcodes OK -118: test_translation_onestring_singleframe_allcodes_runtime OK -118: test_translation_onestring_multiframe_serial OK -118: test_translation_onestring_multiframe_concatdirect_serial OK -118: test_translation_stringset_multiframe_serial OK -118: test_translation_stringset_multiframe_concatdirect_serial OK - 79/414 Test #19: test_test_align_parallel_algorithm ................................................ Passed 0.43 sec - 80/414 Test #49: test_test_graph_msa ............................................................... Passed 0.37 sec - 81/414 Test #61: test_test_index_sa_bwtwalk ........................................................ Passed 0.34 sec - 82/414 Test #77: test_journaled_string_tree_traverser .............................................. Passed 0.28 sec - 83/414 Test #102: test_test_seeds_align_banded_chain_impl ........................................... Passed 0.13 sec - 84/414 Test #103: test_test_seeds_banded_chain_alignment_interface .................................. Passed 0.12 sec - 85/414 Test #105: test_test_sequence ................................................................ Passed 0.10 sec - 86/414 Test #108: test_test_sequence_journaled ...................................................... Passed 0.08 sec - 87/414 Test #109: test_test_simd_vector ............................................................. Passed 0.08 sec - 88/414 Test #110: test_test_simd_vector_sse4_host ................................................... Passed 0.07 sec - 89/414 Test #111: test_test_simd_vector_avx2_host ................................................... Passed 0.07 sec - 90/414 Test #112: test_test_simple_intervals_io ..................................................... Passed 0.07 sec - 91/414 Test #113: test_test_statistics .............................................................. Passed 0.05 sec - 92/414 Test #116: test_test_find_swift .............................................................. Passed 0.05 sec -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -104: test_seq_io_bam_file_bam_read_sequences OK -104: test_seq_io_bam_file_bam_read_sequences_and_qualities OK -84: test_parallel_atomic_dec OK -89: test_realign_simple_gaps OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -106: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_LessOperator type parameter seqan::String > > OK -106: StringTestCommon_LessOperator type parameter seqan::String > > OK -106: StringTestCommon_LessOperator type parameter seqan::String > > OK -106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter seqan::String > OK -106: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_LessOperator type parameter std::vector, std::allocator > > OK -106: StringTestCommon_LessOperator type parameter std::vector > OK -106: StringTestCommon_LessOperator type parameter std::vector > OK -106: StringTestCommon_LessOperator type parameter std::vector > OK -106: StringTestCommon_LessOperator type parameter std::deque, std::allocator > > OK -106: StringTestCommon_LessOperator type parameter std::deque > OK -106: StringTestCommon_LessOperator type parameter std::deque > OK -106: StringTestCommon_LessOperator type parameter std::deque > OK -106: StringTestCommon_LessOperator type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_LessOperator type parameter std::forward_list > OK -106: StringTestCommon_LessOperator type parameter std::forward_list > OK -106: StringTestCommon_LessOperator type parameter std::forward_list > OK -106: StringTestCommon_LessOperator type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK + 84/414 Test #89: test_test_realign ................................................................. Passed 0.59 sec + 85/414 Test #99: test_test_seeds_seed_diagonal ..................................................... Passed 0.43 sec + 86/414 Test #100: test_test_seeds_seed_set_base ..................................................... Passed 0.42 sec + 87/414 Test #101: test_test_seeds_seed_set_unordered ................................................ Passed 0.41 sec + 88/414 Test #102: test_test_seeds_align_banded_chain_impl ........................................... Passed 0.40 sec + 89/414 Test #103: test_test_seeds_banded_chain_alignment_interface .................................. Passed 0.40 sec + 90/414 Test #108: test_test_sequence_journaled ...................................................... Passed 0.33 sec + 91/414 Test #109: test_test_simd_vector ............................................................. Passed 0.32 sec + 92/414 Test #110: test_test_simd_vector_sse4_host ................................................... Passed 0.31 sec + 93/414 Test #111: test_test_simd_vector_avx2_host ................................................... Passed 0.30 sec + 94/414 Test #112: test_test_simple_intervals_io ..................................................... Passed 0.29 sec +test 126 + Start 126: test_demo_dox_align_integrate_align + +126: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout" +126: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +126: Test timeout computed to be: 10000000 +test 127 + Start 127: test_demo_dox_align_extend_extend_alignment + +127: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout" +127: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +127: Test timeout computed to be: 10000000 +test 128 + Start 128: test_demo_dox_align_split_split_alignment + +128: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout" +128: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +128: Test timeout computed to be: 10000000 +test 129 + Start 129: test_demo_dox_bam_io_bam_tags_dict + +129: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout" +129: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +129: Test timeout computed to be: 10000000 +test 130 + Start 130: test_demo_dox_basic_zip_iterator + +130: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout" +130: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +130: Test timeout computed to be: 10000000 +test 131 + Start 131: test_demo_dox_consensus_consensus_alignment + +131: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout" +131: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +131: Test timeout computed to be: 10000000 +test 132 + Start 132: test_demo_dox_find_finder_index + +132: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout" +132: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +132: Test timeout computed to be: 10000000 +test 133 + Start 133: test_demo_dox_find_finder_online + +133: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout" +133: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +133: Test timeout computed to be: 10000000 +test 134 + Start 134: test_demo_dox_graph_algorithms_all_pairs_shortest_path + +134: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout" +134: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +134: Test timeout computed to be: 10000000 +test 135 + Start 135: test_demo_dox_graph_algorithms_bellman_ford_algorithm + +135: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_bellman_ford_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.cpp.stdout" +135: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +135: Test timeout computed to be: 10000000 +test 136 + Start 136: test_demo_dox_graph_algorithms_breadth_first_search + +136: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_breadth_first_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp.stdout" +136: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +136: Test timeout computed to be: 10000000 +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +104: test_seq_io_bam_file_bam_write_sequences OK +104: test_seq_io_bam_file_bam_write_sequences_and_qualities OK +104: ************************************** +104: Total Tests: 44 +104: Skipped: 0 +104: Errors: 0 +104: ************************************** + 95/414 Test #105: test_test_sequence ................................................................ Passed 0.46 sec 107: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK 107: StringSetTestCommon_Insert type parameter seqan::StringSet >, seqan::Owner > > OK 107: StringSetTestCommon_Insert type parameter seqan::StringSet, seqan::Alloc >, seqan::Owner > > OK @@ -307351,7 +307316,209 @@ 107: Skipped: 18 107: Errors: 0 107: ************************************** - 93/414 Test #107: test_test_stringset_v2 ............................................................ Passed 0.09 sec + 96/414 Test #107: test_test_stringset_v2 ............................................................ Passed 0.43 sec + 97/414 Test #113: test_test_statistics .............................................................. Passed 0.37 sec +114: TEST SUITE test_store +114: SEQAN_ENABLE_DEBUG == 1 +114: SEQAN_ENABLE_TESTING == 1 +114: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +114: SEQAN_ASYNC_IO == 1 +114: test_store_io_read_ucsc_known_genes OK +114: test_store_io_read_ucsc_known_genes_and_isoforms OK +114: test_store_io_write_ucsc_known_genes OK +114: test_store_io_read_gff OK +114: test_store_io_write_gff OK +114: test_store_io_read_gtf OK +114: test_store_io_write_gtf OK +114: test_store_io_readwrite_amos OK +114: test_store_io_read_amos OK +114: test_store_io_write_amos OK +114: test_store_io_sam OK +21: test_align_parallel_wavefront_multiple_global_alignment_simd OK +21: ************************************** +21: Total Tests: 3 +21: Skipped: 0 +21: Errors: 0 +21: ************************************** + 98/414 Test #21: test_test_align_parallel_algorithm_avx2_host ...................................... Passed 1.64 sec +66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +24: test_alignment_free_alignment_free_comparison OK +24: test_alignment_free_count_kmers OK +24: test_alignment_free_calculate_periodicity OK +24: test_alignment_free_calculate_overlap_indicator OK +24: test_alignment_free_string_to_string_set OK +24: test_alignment_free_cut_ns OK +24: ************************************** +24: Total Tests: 14 +24: Skipped: 0 +24: Errors: 0 +24: ************************************** + 99/414 Test #24: test_test_alignment_free .......................................................... Passed 1.62 sec +115: TEST SUITE tests +115: SEQAN_ENABLE_DEBUG == 1 +115: SEQAN_ENABLE_TESTING == 1 +115: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +115: SEQAN_ASYNC_IO == 1 +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_UnsignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_SignedSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_FloatingPointSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongPrefixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair >, void> OK +115: LexicalCastTest_WrongSuffixSource type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair >, void> OK +115: LexicalCastTest_Exception type parameter seqan::Pair, std::allocator >, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, short, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, int, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, long, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, long long, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned short, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned int, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned long, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, unsigned long long, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, float, void> OK +115: AppendUnsignedTest_AppendNumber type parameter seqan::Pair >, double, void> OK +115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, short, void> OK +115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, int, void> OK +115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, long, void> OK +115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, long long, void> OK +115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, float, void> OK +115: AppendSignedTest_AppendNumber type parameter seqan::Pair >, double, void> OK +115: AppendFloatingPointTest_AppendNumber type parameter seqan::Pair >, float, void> OK +115: AppendFloatingPointTest_AppendNumber type parameter seqan::Pair >, double, void> OK +115: TokenizationTest_read type parameter seqan::String > OK +115: TokenizationTest_read type parameter std::basic_ifstream > OK +115: TokenizationTest_read type parameter std::basic_fstream > OK +115: TokenizationTest_read type parameter seqan::Iter >, seqan::StreamIterator > > OK +115: TokenizationTest_ReadIgnoring type parameter seqan::String > OK +115: TokenizationTest_ReadIgnoring type parameter std::basic_ifstream > OK +115: TokenizationTest_ReadIgnoring type parameter std::basic_fstream > OK +115: TokenizationTest_ReadIgnoring type parameter seqan::Iter >, seqan::StreamIterator > > OK +115: TokenizationTest_ReadUntil_ReadLine type parameter seqan::String > OK +115: TokenizationTest_ReadUntil_ReadLine type parameter std::basic_ifstream > OK +115: TokenizationTest_ReadUntil_ReadLine type parameter std::basic_fstream > OK +115: TokenizationTest_ReadUntil_ReadLine type parameter seqan::Iter >, seqan::StreamIterator > > OK +115: TokenizationTest_SkipUntil type parameter seqan::String > OK +115: TokenizationTest_SkipUntil type parameter std::basic_ifstream > OK +115: TokenizationTest_SkipUntil type parameter std::basic_fstream > OK +115: TokenizationTest_SkipUntil type parameter seqan::Iter >, seqan::StreamIterator > > OK +115: TokenizationTest_SkipLine type parameter seqan::String > OK +115: TokenizationTest_SkipLine type parameter std::basic_ifstream > OK +115: TokenizationTest_SkipLine type parameter std::basic_fstream > OK +115: TokenizationTest_SkipLine type parameter seqan::Iter >, seqan::StreamIterator > > OK +115: FileStreamTest_ReadSimpleUsage type parameter seqan::Async OK +115: FileStreamTest_ReadSimpleUsage type parameter seqan::MMap >, unsigned long> > OK 115: FileStreamTest_ReadComplexUsage type parameter seqan::Async OK 115: FileStreamTest_ReadComplexUsage type parameter seqan::MMap >, unsigned long> > OK 115: FileStreamTest_WriteSimpleUsage type parameter seqan::Async OK @@ -307364,290 +307531,45 @@ 115: FileStreamTest_Seek type parameter seqan::MMap >, unsigned long> > OK 115: FileStreamTest_Tell type parameter seqan::Async OK 115: FileStreamTest_Tell type parameter seqan::MMap >, unsigned long> > OK -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -66: IndexTest_IndexCreate type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -20: test_align_parallel_wavefront_multiple_global_alignment OK -test 119 - Start 119: test_ucsc_io - -119: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_ucsc_io -119: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/ucsc_io -119: Test timeout computed to be: 10000000 -test 120 - Start 120: test_test_vcf_io - -120: Test command: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/test_vcf_io -120: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/tests/vcf_io -120: Test timeout computed to be: 10000000 -test 121 - Start 121: test_demo_dox_align_align - -121: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout" -121: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -121: Test timeout computed to be: 10000000 -test 122 - Start 122: test_demo_dox_align_compute_alignment_stats - -122: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp.stdout" -122: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -122: Test timeout computed to be: 10000000 -test 123 - Start 123: test_demo_dox_align_gaps_example - -123: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout" -123: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -123: Test timeout computed to be: 10000000 -test 124 - Start 124: test_demo_dox_align_global_alignment_banded - -124: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout" -124: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -124: Test timeout computed to be: 10000000 -test 125 - Start 125: test_demo_dox_align_global_alignment_unbanded - -125: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout" -125: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -125: Test timeout computed to be: 10000000 -test 126 - Start 126: test_demo_dox_align_integrate_align - -126: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout" -126: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -126: Test timeout computed to be: 10000000 -test 127 - Start 127: test_demo_dox_align_extend_extend_alignment - -127: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout" -127: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -127: Test timeout computed to be: 10000000 -test 128 - Start 128: test_demo_dox_align_split_split_alignment - -128: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout" -128: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -128: Test timeout computed to be: 10000000 -test 129 - Start 129: test_demo_dox_bam_io_bam_tags_dict - -129: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout" -129: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -129: Test timeout computed to be: 10000000 -test 130 - Start 130: test_demo_dox_basic_zip_iterator - -130: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout" -130: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -130: Test timeout computed to be: 10000000 -test 131 - Start 131: test_demo_dox_consensus_consensus_alignment - -131: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout" -131: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -131: Test timeout computed to be: 10000000 -test 132 - Start 132: test_demo_dox_find_finder_index - -132: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout" -132: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -132: Test timeout computed to be: 10000000 -45: test_myers_find_banded OK -45: test_myers_find_banded_csp OK -45: test_myers_find_infix_find_begin_at_start OK -45: test_myers_find_infix_find_begin_within OK -45: test_find_on_segments OK -45: test_find_hamming_simple OK -45: test_find_hamming_simple_regression_rmbench OK -45: test_regression_rmbench OK -45: test_find_online_Simple OK -45: test_find_online_Horspool OK -45: test_find_online_ShiftAnd OK -45: test_find_online_ShiftOr OK -45: test_find_online_BndmAlgo OK -45: test_find_online_BFAM_Oracle OK -45: test_find_online_BFAM_Trie OK -45: test_find_online_wildcards OK -45: test_find_online_multi_AhoCorasick OK -45: test_find_online_multi_MultipleShiftAnd OK -45: test_find_online_multi_SetHorspool OK -45: test_find_online_multi_WuManber OK -45: test_find_online_multi_MultiBFAM_Oracle OK -45: test_find_online_multi_MultiBFAM_Trie OK -45: test_find_approx_prefix_edit_dist_dpsearch OK -45: test_approx_prefix_edit_dist_myers OK -45: test_approx_edit_dist_dp_search_simple_score OK -45: test_approx_edit_dist_myers OK -45: test_approx_edit_dp_search_simple_score_legacy_case OK -45: test_approx_edit_dist_abndm_algo OK -45: test_approx_edit_dist_pex_non_hierarchical OK -45: test_approx_edit_dist_pex_hierarchical OK -45: test_approx_edit_dist_pex_non_hierarchical_aho_corasick OK -45: test_approx_edit_dist_pex_non_hierarchical_multi_bfam OK -45: test_find_hamming_simple OK -45: test_pattern_copycon OK -45: test_pattern_assign OK -45: test_pattern_movecon OK -45: test_pattern_moveassign OK -45: test_pattern_set_host OK -45: ************************************** -45: Total Tests: 39 -45: Skipped: 0 -45: Errors: 0 -45: ************************************** -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -17: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -17: ************************************** -17: Total Tests: 24 -17: Skipped: 0 -17: Errors: 0 -17: ************************************** -104: test_seq_io_bam_file_bam_write_sequences OK -104: test_seq_io_bam_file_bam_write_sequences_and_qualities OK -104: ************************************** -104: Total Tests: 44 -104: Skipped: 0 -104: Errors: 0 -104: ************************************** -84: test_parallel_atomic_add OK -89: test_realign_simple_insert OK -89: test_realign_simple_insert_window OK -89: test_realign_simple_insert_window_tight_left OK -89: test_realign_simple_insert_window_tight_right OK -89: test_realign_tricky_insert_window_cuts OK -89: ************************************** -89: Total Tests: 10 -89: Skipped: 0 -89: Errors: 0 -89: ************************************** -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK -106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_LessEqualOperator type parameter std::vector, std::allocator > > OK -106: StringTestCommon_LessEqualOperator type parameter std::vector > OK -106: StringTestCommon_LessEqualOperator type parameter std::vector > OK -106: StringTestCommon_LessEqualOperator type parameter std::vector > OK -106: StringTestCommon_LessEqualOperator type parameter std::deque, std::allocator > > OK -106: StringTestCommon_LessEqualOperator type parameter std::deque > OK -106: StringTestCommon_LessEqualOperator type parameter std::deque > OK -106: StringTestCommon_LessEqualOperator type parameter std::deque > OK -106: StringTestCommon_LessEqualOperator type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK -106: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK -106: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK -106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_GreaterOperator type parameter std::vector, std::allocator > > OK -106: StringTestCommon_GreaterOperator type parameter std::vector > OK -106: StringTestCommon_GreaterOperator type parameter std::vector > OK -106: StringTestCommon_GreaterOperator type parameter std::vector > OK -106: StringTestCommon_GreaterOperator type parameter std::deque, std::allocator > > OK -106: StringTestCommon_GreaterOperator type parameter std::deque > OK -106: StringTestCommon_GreaterOperator type parameter std::deque > OK -106: StringTestCommon_GreaterOperator type parameter std::deque > OK -106: StringTestCommon_GreaterOperator type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_GreaterOperator type parameter std::forward_list > OK -106: StringTestCommon_GreaterOperator type parameter std::forward_list > OK -106: StringTestCommon_GreaterOperator type parameter std::forward_list > OK -106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -test 133 - Start 133: test_demo_dox_find_finder_online - -133: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout" -133: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -133: Test timeout computed to be: 10000000 -55: testIndexCreation OK -55: ************************************** -55: Total Tests: 6 -55: Skipped: 0 -55: Errors: 0 -55: ************************************** -118: test_translation_onestring_multiframe_parallel OK +115: FileStreamTest_ReadLarge type parameter seqan::Async OK +116: TEST SUITE test_find_swift +116: SEQAN_ENABLE_DEBUG == 1 +116: SEQAN_ENABLE_TESTING == 1 +116: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +116: SEQAN_ASYNC_IO == 1 +116: test_find_swift OK +116: test_longest_epsMatch OK +116: test_split_xDrop_align OK +116: ************************************** +116: Total Tests: 3 +116: Skipped: 0 +116: Errors: 0 +116: ************************************** +100/414 Test #116: test_test_find_swift .............................................................. Passed 0.30 sec +117: TEST SUITE test_tabix_io +117: SEQAN_ENABLE_DEBUG == 1 +117: SEQAN_ENABLE_TESTING == 1 +117: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +117: SEQAN_ASYNC_IO == 1 117: test_tabix_io_read_indexed_vcf OK 117: ************************************** 117: Total Tests: 1 117: Skipped: 0 117: Errors: 0 117: ************************************** +101/414 Test #117: test_test_tabix_io ................................................................ Passed 0.29 sec +118: TEST SUITE test_translation +118: SEQAN_ENABLE_DEBUG == 1 +118: SEQAN_ENABLE_TESTING == 1 +118: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +118: SEQAN_ASYNC_IO == 1 +118: test_translation_onestring_singleframe_allcodes OK +118: test_translation_onestring_singleframe_allcodes_runtime OK +118: test_translation_onestring_multiframe_serial OK +118: test_translation_onestring_multiframe_concatdirect_serial OK +118: test_translation_stringset_multiframe_serial OK +118: test_translation_stringset_multiframe_concatdirect_serial OK +118: test_translation_onestring_multiframe_parallel OK 119: TEST SUITE test_ucsc_io 119: SEQAN_ENABLE_DEBUG == 1 119: SEQAN_ENABLE_TESTING == 1 @@ -307666,6 +307588,7 @@ 119: Skipped: 0 119: Errors: 0 119: ************************************** +102/414 Test #119: test_ucsc_io ...................................................................... Passed 0.26 sec 120: TEST SUITE test_vcf_io 120: SEQAN_ENABLE_DEBUG == 1 120: SEQAN_ENABLE_TESTING == 1 @@ -307684,38 +307607,7 @@ 120: Skipped: 0 120: Errors: 0 120: ************************************** - 94/414 Test #17: test_test_align_parallel_interface_sse4_host ...................................... Passed 0.54 sec - 95/414 Test #45: test_test_find .................................................................... Passed 0.48 sec - 96/414 Test #55: test_test_index_creation .......................................................... Passed 0.46 sec - 97/414 Test #89: test_test_realign ................................................................. Passed 0.30 sec - 98/414 Test #104: test_test_seq_io .................................................................. Passed 0.22 sec - 99/414 Test #117: test_test_tabix_io ................................................................ Passed 0.15 sec -100/414 Test #119: test_ucsc_io ...................................................................... Passed 0.10 sec -101/414 Test #120: test_test_vcf_io .................................................................. Passed 0.08 sec -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple, seqan::Tag > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -test 134 - Start 134: test_demo_dox_graph_algorithms_all_pairs_shortest_path - -134: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout" -134: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -134: Test timeout computed to be: 10000000 -test 135 - Start 135: test_demo_dox_graph_algorithms_bellman_ford_algorithm - -135: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_bellman_ford_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.cpp.stdout" -135: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -135: Test timeout computed to be: 10000000 -test 136 - Start 136: test_demo_dox_graph_algorithms_breadth_first_search - -136: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_breadth_first_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp.stdout" -136: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -136: Test timeout computed to be: 10000000 +103/414 Test #120: test_test_vcf_io .................................................................. Passed 0.24 sec test 137 Start 137: test_demo_dox_graph_algorithms_dag_shortest_path @@ -307746,373 +307638,157 @@ 141: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.stdout" 141: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 141: Test timeout computed to be: 10000000 -114: test_store_io_write_amos OK -18: ParallelAlignInterfaceTestCommon_Local_Score type parameter std::tuple >, seqan::Tag > > OK -18: ************************************** -18: Total Tests: 24 -18: Skipped: 0 -18: Errors: 0 -18: ************************************** -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::vector, std::allocator > > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::deque, std::allocator > > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -71: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -126: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -126: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -133: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -133: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -130: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -130: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -132: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -132: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -129: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -129: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -125: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -125: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -134: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -134: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -102/414 Test #18: test_test_align_parallel_interface_avx2_host ...................................... Passed 0.59 sec test 142 Start 142: test_demo_dox_graph_algorithms_kruskals_algorithm 142: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout" 142: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 142: Test timeout computed to be: 10000000 -127: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -127: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -131: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -131: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK -121: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -121: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -124: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -124: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -21: test_align_parallel_wavefront_multiple_global_alignment_simd OK -21: ************************************** -21: Total Tests: 3 -21: Skipped: 0 -21: Errors: 0 -21: ************************************** -106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > > OK -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter seqan::String > OK -106: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_EqualOperator type parameter std::vector, std::allocator > > OK -106: StringTestCommon_EqualOperator type parameter std::vector > OK -106: StringTestCommon_EqualOperator type parameter std::vector > OK -106: StringTestCommon_EqualOperator type parameter std::vector > OK -106: StringTestCommon_EqualOperator type parameter std::deque, std::allocator > > OK -106: StringTestCommon_EqualOperator type parameter std::deque > OK -106: StringTestCommon_EqualOperator type parameter std::deque > OK -106: StringTestCommon_EqualOperator type parameter std::deque > OK -106: StringTestCommon_EqualOperator type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_EqualOperator type parameter std::forward_list > OK -106: StringTestCommon_EqualOperator type parameter std::forward_list > OK -106: StringTestCommon_EqualOperator type parameter std::forward_list > OK -106: StringTestCommon_EqualOperator type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK -103/414 Test #21: test_test_align_parallel_algorithm_avx2_host ...................................... Passed 0.60 sec test 143 Start 143: test_demo_dox_graph_algorithms_prims_algorithm 143: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout" 143: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 143: Test timeout computed to be: 10000000 +test 144 + Start 144: test_demo_dox_graph_algorithms_strongly_connected_components + +144: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_strongly_connected_components" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp.stdout" +144: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +144: Test timeout computed to be: 10000000 +test 145 + Start 145: test_demo_dox_graph_algorithms_topological_sort + +145: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_topological_sort" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp.stdout" +145: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +145: Test timeout computed to be: 10000000 +121: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +121: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +121: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align. +121: Return code was 0. +121: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout", "None". +121: Standard output was as expected. +121: Standard error was as expected. +124: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +124: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +124: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded. +124: Return code was 0. +124: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout", "None". +124: Standard output was as expected. +124: Standard error was as expected. 122: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 122: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -118: test_translation_onestring_multiframe_concatdirect_parallel OK -139: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -139: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -128: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -128: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -137: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -137: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 1u> > > OK -126: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align. -134: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path. -133: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online. -131: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment. -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK -86: test_pipe_test_external_string OK -134: Return code was 0. -134: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout", "None". -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -132: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index. -134: Standard output was as expected. -134: Standard error was as expected. -139: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dijkstra. -138: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -138: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -132: Return code was 0. -132: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout", "None". -139: Return code was 0. -139: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp.stdout", "None". -132: Standard output was as expected. -132: Standard error was as expected. -126: Return code was 0. -126: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout", "None". 122: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_compute_alignment_stats. -139: Standard output was as expected. -139: Standard error was as expected. -135: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -135: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -133: Return code was 0. -133: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout", "None". -133: Standard output was as expected. -133: Standard error was as expected. -126: Standard output was as expected. -126: Standard error was as expected. 122: Return code was 0. 122: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/compute_alignment_stats.cpp.stdout", "None". 122: Standard output was as expected. 122: Standard error was as expected. -124: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_banded. -106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK 123: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 123: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -124: Return code was 0. -124: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_banded.cpp.stdout", "None". +123: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example. +123: Return code was 0. +123: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout", "None". +123: Standard output was as expected. +123: Standard error was as expected. +106: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter seqan::String > OK +106: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_CopyConstructible type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_CopyConstructible type parameter std::vector, std::allocator > > OK +106: StringTestCommon_CopyConstructible type parameter std::vector > OK +106: StringTestCommon_CopyConstructible type parameter std::vector > OK +106: StringTestCommon_CopyConstructible type parameter std::vector > OK +106: StringTestCommon_CopyConstructible type parameter std::deque, std::allocator > > OK +106: StringTestCommon_CopyConstructible type parameter std::deque > OK +106: StringTestCommon_CopyConstructible type parameter std::deque > OK +106: StringTestCommon_CopyConstructible type parameter std::deque > OK +106: StringTestCommon_CopyConstructible type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +106: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +106: StringTestCommon_CopyConstructible type parameter std::forward_list > OK +106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +106: StringTestCommon_CopyConstructible type parameter std::__cxx11::list > OK +106: StringTestCommon_LessOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_LessOperator type parameter seqan::String >, 4194304u, 2u> > > OK +125: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +125: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 125: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_global_alignment_unbanded. -141: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -141: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -136: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -136: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -130: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator. -121: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_align. -124: Standard output was as expected. -124: Standard error was as expected. -127: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment. -127: Return code was 0. -127: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout", "None". -127: Standard output was as expected. -127: Standard error was as expected. 125: Return code was 0. 125: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/global_alignment_unbanded.cpp.stdout", "None". 125: Standard output was as expected. 125: Standard error was as expected. -106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter seqan::String > OK -106: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_UnequalOperator type parameter std::vector, std::allocator > > OK -106: StringTestCommon_UnequalOperator type parameter std::vector > OK -106: StringTestCommon_UnequalOperator type parameter std::vector > OK -106: StringTestCommon_UnequalOperator type parameter std::vector > OK -106: StringTestCommon_UnequalOperator type parameter std::deque, std::allocator > > OK -106: StringTestCommon_UnequalOperator type parameter std::deque > OK -106: StringTestCommon_UnequalOperator type parameter std::deque > OK -106: StringTestCommon_UnequalOperator type parameter std::deque > OK -106: StringTestCommon_UnequalOperator type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_UnequalOperator type parameter std::forward_list > OK -106: StringTestCommon_UnequalOperator type parameter std::forward_list > OK -106: StringTestCommon_UnequalOperator type parameter std::forward_list > OK -106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK -106: StringTestCommon_Assign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Assign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK -121: Return code was 0. -121: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/align.cpp.stdout", "None". -121: Standard output was as expected. -121: Standard error was as expected. -129: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict. -137: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dag_shortest_path. -104/414 Test #122: test_demo_dox_align_compute_alignment_stats ....................................... Passed 0.19 sec -105/414 Test #133: test_demo_dox_find_finder_online .................................................. Passed 0.14 sec -106/414 Test #139: test_demo_dox_graph_algorithms_dijkstra ........................................... Passed 0.10 sec -130: Return code was 0. -130: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout", "None". -test 144 - Start 144: test_demo_dox_graph_algorithms_strongly_connected_components - -144: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_strongly_connected_components" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp.stdout" -144: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -144: Test timeout computed to be: 10000000 -test 145 - Start 145: test_demo_dox_graph_algorithms_topological_sort - -145: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_topological_sort" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp.stdout" -145: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -145: Test timeout computed to be: 10000000 +126: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +126: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +126: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_integrate_align. +126: Return code was 0. +126: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/integrate_align.cpp.stdout", "None". +126: Standard output was as expected. +126: Standard error was as expected. +104/414 Test #104: test_test_seq_io .................................................................. Passed 0.55 sec test 146 Start 146: test_demo_dox_graph_algorithms_transitive_closure 146: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_transitive_closure" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp.stdout" 146: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 146: Test timeout computed to be: 10000000 -106: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Assign type parameter seqan::String > > OK -106: StringTestCommon_Assign type parameter seqan::String > > OK -106: StringTestCommon_Assign type parameter seqan::String > > OK -106: StringTestCommon_Assign type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter seqan::String > OK -106: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Assign type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Assign type parameter std::vector > OK -106: StringTestCommon_Assign type parameter std::vector > OK -106: StringTestCommon_Assign type parameter std::vector > OK -106: StringTestCommon_Assign type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Assign type parameter std::deque > OK -106: StringTestCommon_Assign type parameter std::deque > OK -106: StringTestCommon_Assign type parameter std::deque > OK -106: StringTestCommon_Assign type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Assign type parameter std::forward_list > OK -106: StringTestCommon_Assign type parameter std::forward_list > OK -106: StringTestCommon_Assign type parameter std::forward_list > OK -106: StringTestCommon_Assign type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Assign type parameter std::__cxx11::list > OK -106: StringTestCommon_Assign type parameter std::__cxx11::list > OK -106: StringTestCommon_Assign type parameter std::__cxx11::list > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK -107/414 Test #126: test_demo_dox_align_integrate_align ............................................... Passed 0.19 sec -130: Standard output was as expected. -130: Standard error was as expected. +105/414 Test #121: test_demo_dox_align_align ......................................................... Passed 0.30 sec +106/414 Test #124: test_demo_dox_align_global_alignment_banded ....................................... Passed 0.27 sec +107/414 Test #122: test_demo_dox_align_compute_alignment_stats ....................................... Passed 0.28 sec +108/414 Test #123: test_demo_dox_align_gaps_example .................................................. Passed 0.28 sec +64: RankDictionaryTest_GetRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 1u, 1u> > > OK +127: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +127: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +127: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_extend_extend_alignment. +127: Return code was 0. +127: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_extend/extend_alignment.cpp.stdout", "None". +127: Standard output was as expected. +127: Standard error was as expected. +128: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +128: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +128: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment. +114: test_store_io_sam2 OK +69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +131: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +131: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +131: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_consensus_consensus_alignment. +130: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +130: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +129: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +129: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +134: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +134: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 147 Start 147: test_demo_dox_graph_types_graph_algo_dijkstra 147: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_types_graph_algo_dijkstra" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_types/graph_algo_dijkstra.cpp.stdout" 147: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 147: Test timeout computed to be: 10000000 -108/414 Test #134: test_demo_dox_graph_algorithms_all_pairs_shortest_path ............................ Passed 0.14 sec -142: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -142: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -114: test_store_io_sam OK -109/414 Test #132: test_demo_dox_find_finder_index ................................................... Passed 0.16 sec -137: Return code was 0. -137: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dag_shortest_path.cpp.stdout", "None". -137: Standard output was as expected. -137: Standard error was as expected. -138: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_depth_first_search. -138: Return code was 0. -138: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp.stdout", "None". -138: Standard output was as expected. -138: Standard error was as expected. -129: Return code was 0. -129: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout", "None". -129: Standard output was as expected. -129: Standard error was as expected. -131: Return code was 0. -131: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout", "None". -131: Standard output was as expected. -131: Standard error was as expected. -135: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_bellman_ford_algorithm. -135: Return code was 0. -135: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.cpp.stdout", "None". -135: Standard output was as expected. -135: Standard error was as expected. -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK test 148 Start 148: test_demo_dox_index_begin_atEnd_representative @@ -308125,404 +307801,278 @@ 149: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_counting" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp.stdout" 149: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 149: Test timeout computed to be: 10000000 -106: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter seqan::String > OK -106: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_OperatorAssign type parameter std::vector, std::allocator > > OK -106: StringTestCommon_OperatorAssign type parameter std::vector > OK -106: StringTestCommon_OperatorAssign type parameter std::vector > OK -106: StringTestCommon_OperatorAssign type parameter std::vector > OK -106: StringTestCommon_OperatorAssign type parameter std::deque, std::allocator > > OK -106: StringTestCommon_OperatorAssign type parameter std::deque > OK -106: StringTestCommon_OperatorAssign type parameter std::deque > OK -106: StringTestCommon_OperatorAssign type parameter std::deque > OK -106: StringTestCommon_OperatorAssign type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_OperatorAssign type parameter std::forward_list > OK -106: StringTestCommon_OperatorAssign type parameter std::forward_list > OK -106: StringTestCommon_OperatorAssign type parameter std::forward_list > OK -106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK -106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK -106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK -106: StringTestCommon_Swap type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Swap type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Swap type parameter seqan::String > > OK -106: StringTestCommon_Swap type parameter seqan::String > > OK -106: StringTestCommon_Swap type parameter seqan::String > > OK -106: StringTestCommon_Swap type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter seqan::String > OK -106: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Swap type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Swap type parameter std::vector > OK -106: StringTestCommon_Swap type parameter std::vector > OK -106: StringTestCommon_Swap type parameter std::vector > OK -106: StringTestCommon_Swap type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Swap type parameter std::deque > OK -106: StringTestCommon_Swap type parameter std::deque > OK -106: StringTestCommon_Swap type parameter std::deque > OK -106: StringTestCommon_Swap type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Swap type parameter std::forward_list > OK -106: StringTestCommon_Swap type parameter std::forward_list > OK -106: StringTestCommon_Swap type parameter std::forward_list > OK -106: StringTestCommon_Swap type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Swap type parameter std::__cxx11::list > OK -106: StringTestCommon_Swap type parameter std::__cxx11::list > OK -106: StringTestCommon_Swap type parameter std::__cxx11::list > OK -106: StringTestCommon_Reverse type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Reverse type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Reverse type parameter seqan::String > > OK -106: StringTestCommon_Reverse type parameter seqan::String > > OK -106: StringTestCommon_Reverse type parameter seqan::String > > OK -106: StringTestCommon_Reverse type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter seqan::String > OK -106: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Reverse type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Reverse type parameter std::vector > OK -106: StringTestCommon_Reverse type parameter std::vector > OK -106: StringTestCommon_Reverse type parameter std::vector > OK -106: StringTestCommon_Reverse type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Reverse type parameter std::deque > OK -106: StringTestCommon_Reverse type parameter std::deque > OK -106: StringTestCommon_Reverse type parameter std::deque > OK -106: StringTestCommon_Reverse type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Reverse type parameter std::forward_list > OK -106: StringTestCommon_Reverse type parameter std::forward_list > OK -106: StringTestCommon_Reverse type parameter std::forward_list > OK -106: StringTestCommon_Reverse type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Reverse type parameter std::__cxx11::list > OK -106: StringTestCommon_Reverse type parameter std::__cxx11::list > OK -106: StringTestCommon_Reverse type parameter std::__cxx11::list > OK -106: StringTestCommon_AssignValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK -128: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_split_split_alignment. -128: Return code was 0. -128: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout", "None". -128: Standard output was as expected. -128: Standard error was as expected. -141: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm. -141: Return code was 0. -141: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.stdout", "None". -141: Standard output was as expected. -141: Standard error was as expected. -136: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_breadth_first_search. -136: Return code was 0. -136: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp.stdout", "None". -136: Standard output was as expected. -136: Standard error was as expected. -110/414 Test #121: test_demo_dox_align_align ......................................................... Passed 0.23 sec -111/414 Test #124: test_demo_dox_align_global_alignment_banded ....................................... Passed 0.23 sec -112/414 Test #129: test_demo_dox_bam_io_bam_tags_dict ................................................ Passed 0.19 sec test 150 Start 150: test_demo_dox_index_finder 150: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_finder" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp.stdout" 150: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 150: Test timeout computed to be: 10000000 +109/414 Test #126: test_demo_dox_align_integrate_align ............................................... Passed 0.19 sec test 151 Start 151: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre 151: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.stdout" 151: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 151: Test timeout computed to be: 10000000 +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +118: test_translation_onestring_multiframe_concatdirect_parallel OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 1u, 1u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +110/414 Test #127: test_demo_dox_align_extend_extend_alignment ....................................... Passed 0.19 sec +86: test_pipe_test_external_string OK +128: Return code was 0. +128: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align_split/split_alignment.cpp.stdout", "None". +128: Standard output was as expected. +128: Standard error was as expected. +137: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +137: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +111/414 Test #125: test_demo_dox_align_global_alignment_unbanded ..................................... Passed 0.29 sec +130: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_basic_zip_iterator. +130: Return code was 0. +130: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/basic/zip_iterator.cpp.stdout", "None". test 152 Start 152: test_demo_dox_index_iterator 152: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp.stdout" 152: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 152: Test timeout computed to be: 10000000 -113/414 Test #128: test_demo_dox_align_split_split_alignment ......................................... Passed 0.21 sec -114/414 Test #141: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm ........................... Passed 0.14 sec -115/414 Test #125: test_demo_dox_align_global_alignment_unbanded ..................................... Passed 0.23 sec -116/414 Test #130: test_demo_dox_basic_zip_iterator .................................................. Passed 0.20 sec -117/414 Test #131: test_demo_dox_consensus_consensus_alignment ....................................... Passed 0.20 sec -118/414 Test #138: test_demo_dox_graph_algorithms_depth_first_search ................................. Passed 0.16 sec -119/414 Test #137: test_demo_dox_graph_algorithms_dag_shortest_path .................................. Passed 0.16 sec -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK -120/414 Test #135: test_demo_dox_graph_algorithms_bellman_ford_algorithm ............................. Passed 0.17 sec -123: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_align_gaps_example. -123: Return code was 0. -123: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/align/gaps_example.cpp.stdout", "None". -123: Standard output was as expected. -123: Standard error was as expected. -140: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -140: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -142: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm. -142: Return code was 0. -142: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout", "None". -142: Standard output was as expected. -142: Standard error was as expected. test 153 Start 153: test_demo_dox_index_iterator_short 153: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator_short" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator_short.cpp.stdout" 153: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 153: Test timeout computed to be: 10000000 +132: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +132: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +130: Standard output was as expected. +130: Standard error was as expected. +79: .................................................................................................... +79: test_map_map OK +79: ************************************** +79: Total Tests: 1 +79: Skipped: 0 +79: Errors: 0 +79: ************************************** +134: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_all_pairs_shortest_path. +135: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +135: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +137: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dag_shortest_path. +138: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +138: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +112/414 Test #79: test_test_map ..................................................................... Passed 1.01 sec test 154 Start 154: test_demo_dox_index_length_countSequences 154: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/length_countSequences.cpp.stdout" 154: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 154: Test timeout computed to be: 10000000 +134: Return code was 0. +134: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/all_pairs_shortest_path.cpp.stdout", "None". +134: Standard output was as expected. +134: Standard error was as expected. +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 2u, 2u> > > OK +137: Return code was 0. +137: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dag_shortest_path.cpp.stdout", "None". +137: Standard output was as expected. +137: Standard error was as expected. +113/414 Test #130: test_demo_dox_basic_zip_iterator .................................................. Passed 0.20 sec test 155 Start 155: test_demo_dox_index_mummy 155: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_mummy" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/mummy.cpp.stdout" 155: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 155: Test timeout computed to be: 10000000 +145: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +145: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +114/414 Test #128: test_demo_dox_align_split_split_alignment ......................................... Passed 0.22 sec test 156 Start 156: test_demo_dox_index_open_save 156: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_open_save" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/open_save.cpp.stdout" 156: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 156: Test timeout computed to be: 10000000 +133: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +133: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +138: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_depth_first_search. +129: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_bam_io_bam_tags_dict. +131: Return code was 0. +131: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/consensus/consensus_alignment.cpp.stdout", "None". +131: Standard output was as expected. +131: Standard error was as expected. +115/414 Test #134: test_demo_dox_graph_algorithms_all_pairs_shortest_path ............................ Passed 0.20 sec test 157 Start 157: test_demo_dox_index_sufarray 157: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_sufarray" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp.stdout" 157: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 157: Test timeout computed to be: 10000000 +116/414 Test #137: test_demo_dox_graph_algorithms_dag_shortest_path .................................. Passed 0.18 sec test 158 Start 158: test_demo_dox_index_textAt_indexText_saAt_indexRequire 158: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_textAt_indexText_saAt_indexRequire" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/textAt_indexText_saAt_indexRequire.cpp.stdout" 158: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 158: Test timeout computed to be: 10000000 +129: Return code was 0. +129: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/bam_io/bam_tags_dict.cpp.stdout", "None". +129: Standard output was as expected. +129: Standard error was as expected. +147: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +147: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 3u, 3u> > > OK +138: Return code was 0. +138: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/depth_first_search.cpp.stdout", "None". +138: Standard output was as expected. +138: Standard error was as expected. +145: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_topological_sort. +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +141: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +141: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +145: Return code was 0. +145: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp.stdout", "None". +145: Standard output was as expected. +145: Standard error was as expected. +139: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +139: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +154: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +154: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +148: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +148: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +153: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +153: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK +151: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +151: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +152: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +152: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +117/414 Test #138: test_demo_dox_graph_algorithms_depth_first_search ................................. Passed 0.20 sec test 159 Start 159: test_demo_dox_misc_enumerate_strings 159: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_enumerate_strings" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/enumerate_strings.cpp.stdout" 159: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 159: Test timeout computed to be: 10000000 +144: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +144: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +118/414 Test #131: test_demo_dox_consensus_consensus_alignment ....................................... Passed 0.27 sec test 160 Start 160: test_demo_dox_misc_name_store_cache 160: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_name_store_cache" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp.stdout" 160: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 160: Test timeout computed to be: 10000000 -106: StringTestCommon_AssignValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_AssignValue type parameter seqan::String > > OK -106: StringTestCommon_AssignValue type parameter seqan::String > > OK -106: StringTestCommon_AssignValue type parameter seqan::String > > OK -106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter seqan::String > OK -106: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_AssignValue type parameter std::vector, std::allocator > > OK -106: StringTestCommon_AssignValue type parameter std::vector > OK -106: StringTestCommon_AssignValue type parameter std::vector > OK -106: StringTestCommon_AssignValue type parameter std::vector > OK -106: StringTestCommon_AssignValue type parameter std::deque, std::allocator > > OK -106: StringTestCommon_AssignValue type parameter std::deque > OK -106: StringTestCommon_AssignValue type parameter std::deque > OK -106: StringTestCommon_AssignValue type parameter std::deque > OK -106: StringTestCommon_AssignValue type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_AssignValue type parameter std::forward_list > OK -106: StringTestCommon_AssignValue type parameter std::forward_list > OK -106: StringTestCommon_AssignValue type parameter std::forward_list > OK -106: StringTestCommon_AssignValue type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK -106: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK -106: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK -106: StringTestCommon_Append type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Append type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Append type parameter seqan::String > > OK -106: StringTestCommon_Append type parameter seqan::String > > OK -106: StringTestCommon_Append type parameter seqan::String > > OK -106: StringTestCommon_Append type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter seqan::String > OK -106: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Append type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Append type parameter std::vector > OK -106: StringTestCommon_Append type parameter std::vector > OK -106: StringTestCommon_Append type parameter std::vector > OK -106: StringTestCommon_Append type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Append type parameter std::deque > OK -106: StringTestCommon_Append type parameter std::deque > OK -106: StringTestCommon_Append type parameter std::deque > OK -106: StringTestCommon_Append type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Append type parameter std::forward_list > OK -106: StringTestCommon_Append type parameter std::forward_list > OK -106: StringTestCommon_Append type parameter std::forward_list > OK -106: StringTestCommon_Append type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Append type parameter std::__cxx11::list > OK -106: StringTestCommon_Append type parameter std::__cxx11::list > OK -106: StringTestCommon_Append type parameter std::__cxx11::list > OK -106: StringTestCommon_AppendValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_AppendValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK -115: FileStreamTest_ReadLarge type parameter seqan::Async OK -143: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -143: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -143: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm. -145: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -145: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -145: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_topological_sort. -145: Return code was 0. -145: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/topological_sort.cpp.stdout", "None". -145: Standard output was as expected. -145: Standard error was as expected. -144: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -144: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -144: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_strongly_connected_components. -144: Return code was 0. -144: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp.stdout", "None". -144: Standard output was as expected. -144: Standard error was as expected. -121/414 Test #123: test_demo_dox_align_gaps_example .................................................. Passed 0.29 sec -122/414 Test #127: test_demo_dox_align_extend_extend_alignment ....................................... Passed 0.26 sec -123/414 Test #136: test_demo_dox_graph_algorithms_breadth_first_search ............................... Passed 0.21 sec +153: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator_short. +142: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +142: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 0u> > > OK +132: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_index. +119/414 Test #129: test_demo_dox_bam_io_bam_tags_dict ................................................ Passed 0.29 sec test 161 Start 161: test_demo_dox_modifier_cyclic_shape 161: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_cyclic_shape" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp.stdout" 161: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 161: Test timeout computed to be: 10000000 +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +143: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +143: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +155: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +155: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +153: Return code was 0. +153: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator_short.cpp.stdout", "None". +140: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +140: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +135: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_bellman_ford_algorithm. +152: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator. +120/414 Test #145: test_demo_dox_graph_algorithms_topological_sort ................................... Passed 0.18 sec test 162 Start 162: test_demo_dox_modifier_modified_string 162: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp.stdout" 162: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 162: Test timeout computed to be: 10000000 -test 163 - Start 163: test_demo_dox_modifier_modified_string_mod_view - -163: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp.stdout" -163: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -163: Test timeout computed to be: 10000000 -124/414 Test #145: test_demo_dox_graph_algorithms_topological_sort ................................... Passed 0.10 sec -125/414 Test #142: test_demo_dox_graph_algorithms_kruskals_algorithm ................................. Passed 0.18 sec -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 2u, 2u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::Levels, 3u, 3u> > > OK -20: test_align_parallel_wavefront_multiple_global_alignment_simd OK -20: ************************************** -20: Total Tests: 3 -20: Skipped: 0 -20: Errors: 0 -20: ************************************** -126/414 Test #20: test_test_align_parallel_algorithm_sse4_host ...................................... Passed 0.76 sec -147: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -147: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +153: Standard output was as expected. +153: Standard error was as expected. +136: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +136: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK +154: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences. +135: Return code was 0. +135: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/bellman_ford_algorithm.cpp.stdout", "None". +156: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +156: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +135: Standard output was as expected. +135: Standard error was as expected. +152: Return code was 0. +152: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp.stdout", "None". 147: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_types_graph_algo_dijkstra. +152: Standard output was as expected. +152: Standard error was as expected. +150: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +150: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +148: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_begin_atEnd_representative. +151: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre. +158: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +158: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +132: Return code was 0. +132: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_index.cpp.stdout", "None". +132: Standard output was as expected. +132: Standard error was as expected. +154: Return code was 0. +154: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/length_countSequences.cpp.stdout", "None". 147: Return code was 0. 147: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_types/graph_algo_dijkstra.cpp.stdout", "None". 147: Standard output was as expected. 147: Standard error was as expected. -84: test_parallel_atomic_or OK -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +154: Standard output was as expected. +154: Standard error was as expected. 146: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 146: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -146: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_transitive_closure. -146: Return code was 0. -146: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp.stdout", "None". -146: Standard output was as expected. -146: Standard error was as expected. -114: test_store_io_sam2 OK -148: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -148: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -150: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -150: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -150: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_finder. +160: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +160: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +114: test_store_io_split_sam OK +133: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_find_finder_online. +151: Return code was 0. +151: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.stdout", "None". +151: Standard output was as expected. +151: Standard error was as expected. +149: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +149: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +155: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_mummy. +121/414 Test #152: test_demo_dox_index_iterator ...................................................... Passed 0.17 sec +133: Return code was 0. +133: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/find/finder_online.cpp.stdout", "None". +test 163 + Start 163: test_demo_dox_modifier_modified_string_mod_view + +163: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp.stdout" +163: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +163: Test timeout computed to be: 10000000 +133: Standard output was as expected. +133: Standard error was as expected. +64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK +64: ************************************** +64: Total Tests: 239 +64: Skipped: 0 +64: Errors: 0 +64: ************************************** +148: Return code was 0. +148: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp.stdout", "None". +148: Standard output was as expected. +148: Standard error was as expected. +122/414 Test #64: test_test_index_fm_rank_dictionary ................................................ Passed 1.41 sec +123/414 Test #147: test_demo_dox_graph_types_graph_algo_dijkstra ..................................... Passed 0.22 sec +124/414 Test #153: test_demo_dox_index_iterator_short ................................................ Passed 0.17 sec +125/414 Test #154: test_demo_dox_index_length_countSequences ......................................... Passed 0.16 sec test 164 Start 164: test_demo_dox_modifier_modified_string_nested @@ -308541,363 +308091,66 @@ 166: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout" 166: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 166: Test timeout computed to be: 10000000 -154: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -154: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -154: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_length_countSequences. -152: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -152: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -152: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator. -152: Return code was 0. -152: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator.cpp.stdout", "None". -152: Standard output was as expected. -152: Standard error was as expected. -143: Return code was 0. -143: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout", "None". -143: Standard output was as expected. -143: Standard error was as expected. -106: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_AppendValue type parameter seqan::String > > OK -106: StringTestCommon_AppendValue type parameter seqan::String > > OK -106: StringTestCommon_AppendValue type parameter seqan::String > > OK -106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter seqan::String > OK -106: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_AppendValue type parameter std::vector, std::allocator > > OK -106: StringTestCommon_AppendValue type parameter std::vector > OK -106: StringTestCommon_AppendValue type parameter std::vector > OK -106: StringTestCommon_AppendValue type parameter std::vector > OK -106: StringTestCommon_AppendValue type parameter std::deque, std::allocator > > OK -106: StringTestCommon_AppendValue type parameter std::deque > OK -106: StringTestCommon_AppendValue type parameter std::deque > OK -106: StringTestCommon_AppendValue type parameter std::deque > OK -106: StringTestCommon_AppendValue type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_AppendValue type parameter std::forward_list > OK -106: StringTestCommon_AppendValue type parameter std::forward_list > OK -106: StringTestCommon_AppendValue type parameter std::forward_list > OK -106: StringTestCommon_AppendValue type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK -106: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK -106: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK -106: StringTestCommon_Back type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Back type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Back type parameter seqan::String > > OK -106: StringTestCommon_Back type parameter seqan::String > > OK -106: StringTestCommon_Back type parameter seqan::String > > OK -106: StringTestCommon_Back type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter seqan::String > OK -106: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Back type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Back type parameter std::vector > OK -106: StringTestCommon_Back type parameter std::vector > OK -106: StringTestCommon_Back type parameter std::vector > OK -106: StringTestCommon_Back type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Back type parameter std::deque > OK -106: StringTestCommon_Back type parameter std::deque > OK -106: StringTestCommon_Back type parameter std::deque > OK -106: StringTestCommon_Back type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Back type parameter std::forward_list > OK -106: StringTestCommon_Back type parameter std::forward_list > OK -106: StringTestCommon_Back type parameter std::forward_list > OK -106: StringTestCommon_Back type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Back type parameter std::__cxx11::list > OK -106: StringTestCommon_Back type parameter std::__cxx11::list > OK -106: StringTestCommon_Back type parameter std::__cxx11::list > OK -106: StringTestCommon_Begin type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Begin type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Begin type parameter seqan::String > > OK -106: StringTestCommon_Begin type parameter seqan::String > > OK -106: StringTestCommon_Begin type parameter seqan::String > > OK -106: StringTestCommon_Begin type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter seqan::String > OK -106: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Begin type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Begin type parameter std::vector > OK -106: StringTestCommon_Begin type parameter std::vector > OK -106: StringTestCommon_Begin type parameter std::vector > OK -106: StringTestCommon_Begin type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Begin type parameter std::deque > OK -106: StringTestCommon_Begin type parameter std::deque > OK -106: StringTestCommon_Begin type parameter std::deque > OK -106: StringTestCommon_Begin type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Begin type parameter std::forward_list > OK -106: StringTestCommon_Begin type parameter std::forward_list > OK -106: StringTestCommon_Begin type parameter std::forward_list > OK -106: StringTestCommon_Begin type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Begin type parameter std::__cxx11::list > OK -106: StringTestCommon_Begin type parameter std::__cxx11::list > OK -106: StringTestCommon_Begin type parameter std::__cxx11::list > OK -106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > > OK -106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter seqan::String > OK -106: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_BeginPosition type parameter std::vector, std::allocator > > OK -106: StringTestCommon_BeginPosition type parameter std::vector > OK -106: StringTestCommon_BeginPosition type parameter std::vector > OK -106: StringTestCommon_BeginPosition type parameter std::vector > OK -106: StringTestCommon_BeginPosition type parameter std::deque, std::allocator > > OK -106: StringTestCommon_BeginPosition type parameter std::deque > OK -106: StringTestCommon_BeginPosition type parameter std::deque > OK -106: StringTestCommon_BeginPosition type parameter std::deque > OK -106: StringTestCommon_BeginPosition type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_BeginPosition type parameter std::forward_list > OK -106: StringTestCommon_BeginPosition type parameter std::forward_list > OK -106: StringTestCommon_BeginPosition type parameter std::forward_list > OK -106: StringTestCommon_BeginPosition type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK -106: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK -106: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK -106: StringTestCommon_Capacity type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Capacity type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Capacity type parameter seqan::String > > OK -106: StringTestCommon_Capacity type parameter seqan::String > > OK -106: StringTestCommon_Capacity type parameter seqan::String > > OK -106: StringTestCommon_Capacity type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter seqan::String > OK -106: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Capacity type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Capacity type parameter std::vector > OK -106: StringTestCommon_Capacity type parameter std::vector > OK -106: StringTestCommon_Capacity type parameter std::vector > OK -106: StringTestCommon_Capacity type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Capacity type parameter std::deque > OK -106: StringTestCommon_Capacity type parameter std::deque > OK -106: StringTestCommon_Capacity type parameter std::deque > OK -106: StringTestCommon_Capacity type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Capacity type parameter std::forward_list > OK -106: StringTestCommon_Capacity type parameter std::forward_list > OK -106: StringTestCommon_Capacity type parameter std::forward_list > OK -106: StringTestCommon_Capacity type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Capacity type parameter std::__cxx11::list > OK -106: StringTestCommon_Capacity type parameter std::__cxx11::list > OK -106: StringTestCommon_Capacity type parameter std::__cxx11::list > OK -106: StringTestCommon_Clear type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Clear type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Clear type parameter seqan::String > > OK -106: StringTestCommon_Clear type parameter seqan::String > > OK -106: StringTestCommon_Clear type parameter seqan::String > > OK -106: StringTestCommon_Clear type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter seqan::String > OK -106: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Clear type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Clear type parameter std::vector > OK -106: StringTestCommon_Clear type parameter std::vector > OK -106: StringTestCommon_Clear type parameter std::vector > OK -106: StringTestCommon_Clear type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Clear type parameter std::deque > OK -106: StringTestCommon_Clear type parameter std::deque > OK -106: StringTestCommon_Clear type parameter std::deque > OK -106: StringTestCommon_Clear type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Clear type parameter std::forward_list > OK -106: StringTestCommon_Clear type parameter std::forward_list > OK -106: StringTestCommon_Clear type parameter std::forward_list > OK -106: StringTestCommon_Clear type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Clear type parameter std::__cxx11::list > OK -106: StringTestCommon_Clear type parameter std::__cxx11::list > OK -106: StringTestCommon_Clear type parameter std::__cxx11::list > OK -106: StringTestCommon_End type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_End type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_End type parameter seqan::String > > OK -106: StringTestCommon_End type parameter seqan::String > > OK -106: StringTestCommon_End type parameter seqan::String > > OK -106: StringTestCommon_End type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter seqan::String > OK -106: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_End type parameter std::vector, std::allocator > > OK -106: StringTestCommon_End type parameter std::vector > OK -106: StringTestCommon_End type parameter std::vector > OK -106: StringTestCommon_End type parameter std::vector > OK -106: StringTestCommon_End type parameter std::deque, std::allocator > > OK -106: StringTestCommon_End type parameter std::deque > OK -106: StringTestCommon_End type parameter std::deque > OK -106: StringTestCommon_End type parameter std::deque > OK -106: StringTestCommon_End type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_End type parameter std::forward_list > OK -106: StringTestCommon_End type parameter std::forward_list > OK -106: StringTestCommon_End type parameter std::forward_list > OK -106: StringTestCommon_End type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_End type parameter std::__cxx11::list > OK -106: StringTestCommon_End type parameter std::__cxx11::list > OK -106: StringTestCommon_End type parameter std::__cxx11::list > OK -106: StringTestCommon_EndPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EndPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -153: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -153: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -153: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_iterator_short. -149: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -149: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -149: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_counting. -156: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -156: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -156: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_open_save. -140: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_floyd_warshall_algorithm. -140: Return code was 0. -140: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp.stdout", "None". -140: Standard output was as expected. -140: Standard error was as expected. -150: Return code was 0. -150: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp.stdout", "None". -150: Standard output was as expected. -150: Standard error was as expected. -155: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -155: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::Levels, 3u, 3u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -148: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_begin_atEnd_representative. -148: Return code was 0. -148: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/begin_atEnd_representative.cpp.stdout", "None". -148: Standard output was as expected. -148: Standard error was as expected. -127/414 Test #143: test_demo_dox_graph_algorithms_prims_algorithm .................................... Passed 0.18 sec -128/414 Test #144: test_demo_dox_graph_algorithms_strongly_connected_components ...................... Passed 0.13 sec -129/414 Test #146: test_demo_dox_graph_algorithms_transitive_closure ................................. Passed 0.12 sec -130/414 Test #147: test_demo_dox_graph_types_graph_algo_dijkstra ..................................... Passed 0.12 sec -131/414 Test #150: test_demo_dox_index_finder ........................................................ Passed 0.10 sec -149: Return code was 0. -149: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp.stdout", "None". -149: Standard output was as expected. -149: Standard error was as expected. test 167 Start 167: test_demo_dox_score_score 167: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_score_score" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp.stdout" 167: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 167: Test timeout computed to be: 10000000 +141: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_ford_fulkerson_algorithm. +141: Return code was 0. +141: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/ford_fulkerson_algorithm.cpp.stdout", "None". +141: Standard output was as expected. +141: Standard error was as expected. +159: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +159: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +155: Return code was 0. +155: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/mummy.cpp.stdout", "None". +155: Standard output was as expected. +155: Standard error was as expected. +160: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_name_store_cache. +160: Return code was 0. +160: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp.stdout", "None". +160: Standard output was as expected. +160: Standard error was as expected. +158: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_textAt_indexText_saAt_indexRequire. +158: Return code was 0. +158: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/textAt_indexText_saAt_indexRequire.cpp.stdout", "None". +158: Standard output was as expected. +158: Standard error was as expected. +84: test_parallel_atomic_or OK +156: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_open_save. +156: Return code was 0. +156: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/open_save.cpp.stdout", "None". +156: Standard output was as expected. +156: Standard error was as expected. +139: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_dijkstra. +139: Return code was 0. +139: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/dijkstra.cpp.stdout", "None". +139: Standard output was as expected. +139: Standard error was as expected. +115: FileStreamTest_ReadLarge type parameter seqan::MMap >, unsigned long> > OK +144: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_strongly_connected_components. +144: Return code was 0. +144: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/strongly_connected_components.cpp.stdout", "None". +144: Standard output was as expected. +144: Standard error was as expected. +142: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_kruskals_algorithm. +142: Return code was 0. +142: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/kruskals_algorithm.cpp.stdout", "None". +142: Standard output was as expected. +142: Standard error was as expected. +143: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_prims_algorithm. +163: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +163: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +126/414 Test #132: test_demo_dox_find_finder_index ................................................... Passed 0.39 sec +127/414 Test #135: test_demo_dox_graph_algorithms_bellman_ford_algorithm ............................. Passed 0.37 sec +128/414 Test #148: test_demo_dox_index_begin_atEnd_representative .................................... Passed 0.26 sec +129/414 Test #151: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre .................... Passed 0.24 sec +130/414 Test #155: test_demo_dox_index_mummy ......................................................... Passed 0.21 sec +131/414 Test #158: test_demo_dox_index_textAt_indexText_saAt_indexRequire ............................ Passed 0.17 sec +132/414 Test #160: test_demo_dox_misc_name_store_cache ............................................... Passed 0.13 sec +133/414 Test #156: test_demo_dox_index_open_save ..................................................... Passed 0.20 sec test 168 Start 168: test_demo_dox_seeds_seeds_chaining @@ -308922,400 +308175,6 @@ 171: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_container_view_zip" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/container_view_zip.cpp.stdout" 171: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 171: Test timeout computed to be: 10000000 -106: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_EndPosition type parameter seqan::String > > OK -106: StringTestCommon_EndPosition type parameter seqan::String > > OK -106: StringTestCommon_EndPosition type parameter seqan::String > > OK -106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter seqan::String > OK -106: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_EndPosition type parameter std::vector, std::allocator > > OK -106: StringTestCommon_EndPosition type parameter std::vector > OK -106: StringTestCommon_EndPosition type parameter std::vector > OK -106: StringTestCommon_EndPosition type parameter std::vector > OK -106: StringTestCommon_EndPosition type parameter std::deque, std::allocator > > OK -106: StringTestCommon_EndPosition type parameter std::deque > OK -106: StringTestCommon_EndPosition type parameter std::deque > OK -106: StringTestCommon_EndPosition type parameter std::deque > OK -106: StringTestCommon_EndPosition type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_EndPosition type parameter std::forward_list > OK -106: StringTestCommon_EndPosition type parameter std::forward_list > OK -106: StringTestCommon_EndPosition type parameter std::forward_list > OK -106: StringTestCommon_EndPosition type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK -106: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK -106: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK -106: StringTestCommon_Erase type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Erase type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Erase type parameter seqan::String > > OK -106: StringTestCommon_Erase type parameter seqan::String > > OK -106: StringTestCommon_Erase type parameter seqan::String > > OK -106: StringTestCommon_Erase type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter seqan::String > OK -106: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Erase type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Erase type parameter std::vector > OK -106: StringTestCommon_Erase type parameter std::vector > OK -106: StringTestCommon_Erase type parameter std::vector > OK -106: StringTestCommon_Erase type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Erase type parameter std::deque > OK -106: StringTestCommon_Erase type parameter std::deque > OK -106: StringTestCommon_Erase type parameter std::deque > OK -106: StringTestCommon_Erase type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Erase type parameter std::forward_list > OK -106: StringTestCommon_Erase type parameter std::forward_list > OK -106: StringTestCommon_Erase type parameter std::forward_list > OK -106: StringTestCommon_Erase type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Erase type parameter std::__cxx11::list > OK -106: StringTestCommon_Erase type parameter std::__cxx11::list > OK -106: StringTestCommon_Erase type parameter std::__cxx11::list > OK -106: StringTestCommon_EraseBack type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_EraseBack type parameter seqan::String > > OK -106: StringTestCommon_EraseBack type parameter seqan::String > > OK -106: StringTestCommon_EraseBack type parameter seqan::String > > OK -106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter seqan::String > OK -106: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_EraseBack type parameter std::vector, std::allocator > > OK -106: StringTestCommon_EraseBack type parameter std::vector > OK -106: StringTestCommon_EraseBack type parameter std::vector > OK -106: StringTestCommon_EraseBack type parameter std::vector > OK -106: StringTestCommon_EraseBack type parameter std::deque, std::allocator > > OK -106: StringTestCommon_EraseBack type parameter std::deque > OK -106: StringTestCommon_EraseBack type parameter std::deque > OK -106: StringTestCommon_EraseBack type parameter std::deque > OK -106: StringTestCommon_EraseBack type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_EraseBack type parameter std::forward_list > OK -106: StringTestCommon_EraseBack type parameter std::forward_list > OK -106: StringTestCommon_EraseBack type parameter std::forward_list > OK -106: StringTestCommon_EraseBack type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK -106: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK -106: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String, seqan::Array<100ul> > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String, seqan::Block<4096ul> > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String, seqan::Alloc > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter seqan::String > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::vector, std::allocator > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::vector > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::vector > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::vector > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::deque, std::allocator > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::deque > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::deque > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::deque > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::forward_list, std::allocator > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::forward_list > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::forward_list > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::forward_list > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::__cxx11::list, std::allocator > > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::__cxx11::list > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::__cxx11::list > OK -106: 1398 -106: 1400 -106: StringTestCommon_Front type parameter std::__cxx11::list > OK -106: StringTestCommon_GetValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String, seqan::MMap >, unsigned long> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String, seqan::Array<100ul> > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String, seqan::Block<4096ul> > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String, seqan::Alloc > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED -106: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED -106: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED -106: StringTestCommon_GetValue type parameter std::vector, std::allocator > > SKIPPED -106: StringTestCommon_GetValue type parameter std::vector > SKIPPED -106: StringTestCommon_GetValue type parameter std::vector > SKIPPED -106: StringTestCommon_GetValue type parameter std::vector > SKIPPED -106: StringTestCommon_GetValue type parameter std::deque, std::allocator > > SKIPPED -106: StringTestCommon_GetValue type parameter std::deque > SKIPPED -106: StringTestCommon_GetValue type parameter std::deque > SKIPPED -106: StringTestCommon_GetValue type parameter std::deque > SKIPPED -106: StringTestCommon_GetValue type parameter std::forward_list, std::allocator > > SKIPPED -106: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED -106: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED -106: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED -106: StringTestCommon_GetValue type parameter std::__cxx11::list, std::allocator > > SKIPPED -106: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED -106: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED -106: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED -106: StringTestCommon_Insert type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Insert type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Insert type parameter seqan::String > > OK -106: StringTestCommon_Insert type parameter seqan::String > > OK -106: StringTestCommon_Insert type parameter seqan::String > > OK -106: StringTestCommon_Insert type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter seqan::String > OK -106: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Insert type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Insert type parameter std::vector > OK -106: StringTestCommon_Insert type parameter std::vector > OK -106: StringTestCommon_Insert type parameter std::vector > OK -106: StringTestCommon_Insert type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Insert type parameter std::deque > OK -106: StringTestCommon_Insert type parameter std::deque > OK -106: StringTestCommon_Insert type parameter std::deque > OK -106: StringTestCommon_Insert type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Insert type parameter std::forward_list > OK -106: StringTestCommon_Insert type parameter std::forward_list > OK -106: StringTestCommon_Insert type parameter std::forward_list > OK -106: StringTestCommon_Insert type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Insert type parameter std::__cxx11::list > OK -106: StringTestCommon_Insert type parameter std::__cxx11::list > OK -106: StringTestCommon_Insert type parameter std::__cxx11::list > OK -106: StringTestCommon_InsertValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_InsertValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK -154: Return code was 0. -154: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/length_countSequences.cpp.stdout", "None". -154: Standard output was as expected. -154: Standard error was as expected. -151: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -151: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -151: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_getOccurrences_getFrequency_range_getFibre. -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary > >, seqan::WaveletTree, 1u, 0u> > > OK -153: Return code was 0. -153: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/iterator_short.cpp.stdout", "None". -153: Standard output was as expected. -153: Standard error was as expected. -156: Return code was 0. -156: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/open_save.cpp.stdout", "None". -156: Standard output was as expected. -156: Standard error was as expected. -160: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -160: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -160: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_name_store_cache. -160: Return code was 0. -160: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/name_store_cache.cpp.stdout", "None". -160: Standard output was as expected. -160: Standard error was as expected. -86: test_pipe_test_simple_pool OK -159: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -159: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -157: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -157: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -155: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_mummy. -155: Return code was 0. -155: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/mummy.cpp.stdout", "None". -155: Standard output was as expected. -155: Standard error was as expected. -158: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -158: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -164: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -164: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -161: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -161: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -132/414 Test #140: test_demo_dox_graph_algorithms_floyd_warshall_algorithm ........................... Passed 0.26 sec -133/414 Test #148: test_demo_dox_index_begin_atEnd_representative .................................... Passed 0.15 sec -134/414 Test #149: test_demo_dox_index_counting ...................................................... Passed 0.14 sec -135/414 Test #152: test_demo_dox_index_iterator ...................................................... Passed 0.13 sec -136/414 Test #153: test_demo_dox_index_iterator_short ................................................ Passed 0.12 sec -137/414 Test #154: test_demo_dox_index_length_countSequences ......................................... Passed 0.11 sec -138/414 Test #156: test_demo_dox_index_open_save ..................................................... Passed 0.10 sec test 172 Start 172: test_demo_dox_sequence_string2 @@ -309328,6 +308187,7 @@ 173: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_stringset" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp.stdout" 173: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 173: Test timeout computed to be: 10000000 +134/414 Test #133: test_demo_dox_find_finder_online .................................................. Passed 0.45 sec test 174 Start 174: test_demo_dox_stream_lexical_cast @@ -309346,6 +308206,65 @@ 176: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_custom_file_endings" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp.stdout" 176: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 176: Test timeout computed to be: 10000000 +143: Return code was 0. +143: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/prims_algorithm.cpp.stdout", "None". +143: Standard output was as expected. +143: Standard error was as expected. +135/414 Test #143: test_demo_dox_graph_algorithms_prims_algorithm .................................... Passed 0.38 sec +136: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_breadth_first_search. +136: Return code was 0. +136: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/breadth_first_search.cpp.stdout", "None". +136: Standard output was as expected. +136: Standard error was as expected. +159: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_enumerate_strings. +159: Return code was 0. +159: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/enumerate_strings.cpp.stdout", "None". +159: Standard output was as expected. +159: Standard error was as expected. +136/414 Test #159: test_demo_dox_misc_enumerate_strings .............................................. Passed 0.22 sec +157: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +157: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +137/414 Test #139: test_demo_dox_graph_algorithms_dijkstra ........................................... Passed 0.42 sec +138/414 Test #141: test_demo_dox_graph_algorithms_ford_fulkerson_algorithm ........................... Passed 0.39 sec +164: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +164: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +164: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_nested. +140: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_floyd_warshall_algorithm. +140: Return code was 0. +140: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/floyd_warshall_algorithm.cpp.stdout", "None". +140: Standard output was as expected. +140: Standard error was as expected. +149: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_counting. +149: Return code was 0. +149: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/counting.cpp.stdout", "None". +149: Standard output was as expected. +149: Standard error was as expected. +139/414 Test #149: test_demo_dox_index_counting ...................................................... Passed 0.34 sec +140/414 Test #144: test_demo_dox_graph_algorithms_strongly_connected_components ...................... Passed 0.38 sec +161: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +161: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +150: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_finder. +150: Return code was 0. +150: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/finder.cpp.stdout", "None". +150: Standard output was as expected. +150: Standard error was as expected. +141/414 Test #150: test_demo_dox_index_finder ........................................................ Passed 0.33 sec +142/414 Test #142: test_demo_dox_graph_algorithms_kruskals_algorithm ................................. Passed 0.39 sec +146: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_graph_algorithms_transitive_closure. +146: Return code was 0. +146: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/graph_algorithms/transitive_closure.cpp.stdout", "None". +146: Standard output was as expected. +146: Standard error was as expected. +163: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view. +163: Return code was 0. +163: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp.stdout", "None". +163: Standard output was as expected. +163: Standard error was as expected. +86: test_pipe_test_simple_pool OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +166: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +166: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +166: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example. test 177 Start 177: test_demo_howto_filter_similar_sequences @@ -309358,260 +308277,6 @@ 178: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_init_score" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp.stdout" 178: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 178: Test timeout computed to be: 10000000 -163: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -163: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -151: Return code was 0. -151: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/getOccurrences_getFrequency_range_getFibre.cpp.stdout", "None". -151: Standard output was as expected. -151: Standard error was as expected. -162: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -162: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -162: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string. -162: Return code was 0. -162: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp.stdout", "None". -162: Standard output was as expected. -162: Standard error was as expected. -157: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_sufarray. -157: Return code was 0. -157: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp.stdout", "None". -157: Standard output was as expected. -157: Standard error was as expected. -106: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_InsertValue type parameter seqan::String > > OK -106: StringTestCommon_InsertValue type parameter seqan::String > > OK -106: StringTestCommon_InsertValue type parameter seqan::String > > OK -106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter seqan::String > OK -106: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_InsertValue type parameter std::vector, std::allocator > > OK -106: StringTestCommon_InsertValue type parameter std::vector > OK -106: StringTestCommon_InsertValue type parameter std::vector > OK -106: StringTestCommon_InsertValue type parameter std::vector > OK -106: StringTestCommon_InsertValue type parameter std::deque, std::allocator > > OK -106: StringTestCommon_InsertValue type parameter std::deque > OK -106: StringTestCommon_InsertValue type parameter std::deque > OK -106: StringTestCommon_InsertValue type parameter std::deque > OK -106: StringTestCommon_InsertValue type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_InsertValue type parameter std::forward_list > OK -106: StringTestCommon_InsertValue type parameter std::forward_list > OK -106: StringTestCommon_InsertValue type parameter std::forward_list > OK -106: StringTestCommon_InsertValue type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK -106: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK -106: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK -106: StringTestCommon_Iter type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Iter type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Iter type parameter seqan::String > > OK -106: StringTestCommon_Iter type parameter seqan::String > > OK -106: StringTestCommon_Iter type parameter seqan::String > > OK -106: StringTestCommon_Iter type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter seqan::String > OK -106: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Iter type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Iter type parameter std::vector > OK -106: StringTestCommon_Iter type parameter std::vector > OK -106: StringTestCommon_Iter type parameter std::vector > OK -106: StringTestCommon_Iter type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Iter type parameter std::deque > OK -106: StringTestCommon_Iter type parameter std::deque > OK -106: StringTestCommon_Iter type parameter std::deque > OK -106: StringTestCommon_Iter type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Iter type parameter std::forward_list > OK -106: StringTestCommon_Iter type parameter std::forward_list > OK -106: StringTestCommon_Iter type parameter std::forward_list > OK -106: StringTestCommon_Iter type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Iter type parameter std::__cxx11::list > OK -106: StringTestCommon_Iter type parameter std::__cxx11::list > OK -106: StringTestCommon_Iter type parameter std::__cxx11::list > OK -106: StringTestCommon_Length type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Length type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Length type parameter seqan::String > > OK -106: StringTestCommon_Length type parameter seqan::String > > OK -106: StringTestCommon_Length type parameter seqan::String > > OK -106: StringTestCommon_Length type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter seqan::String > OK -106: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Length type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Length type parameter std::vector > OK -106: StringTestCommon_Length type parameter std::vector > OK -106: StringTestCommon_Length type parameter std::vector > OK -106: StringTestCommon_Length type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Length type parameter std::deque > OK -106: StringTestCommon_Length type parameter std::deque > OK -106: StringTestCommon_Length type parameter std::deque > OK -106: StringTestCommon_Length type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Length type parameter std::forward_list > OK -106: StringTestCommon_Length type parameter std::forward_list > OK -106: StringTestCommon_Length type parameter std::forward_list > OK -106: StringTestCommon_Length type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Length type parameter std::__cxx11::list > OK -106: StringTestCommon_Length type parameter std::__cxx11::list > OK -106: StringTestCommon_Length type parameter std::__cxx11::list > OK -106: StringTestCommon_MoveValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_MoveValue type parameter seqan::String > > OK -106: StringTestCommon_MoveValue type parameter seqan::String > > OK -106: StringTestCommon_MoveValue type parameter seqan::String > > OK -106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter seqan::String > OK -106: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_MoveValue type parameter std::vector, std::allocator > > OK -106: StringTestCommon_MoveValue type parameter std::vector > OK -106: StringTestCommon_MoveValue type parameter std::vector > OK -106: StringTestCommon_MoveValue type parameter std::vector > OK -106: StringTestCommon_MoveValue type parameter std::deque, std::allocator > > OK -106: StringTestCommon_MoveValue type parameter std::deque > OK -106: StringTestCommon_MoveValue type parameter std::deque > OK -106: StringTestCommon_MoveValue type parameter std::deque > OK -106: StringTestCommon_MoveValue type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_MoveValue type parameter std::forward_list > OK -106: StringTestCommon_MoveValue type parameter std::forward_list > OK -106: StringTestCommon_MoveValue type parameter std::forward_list > OK -106: StringTestCommon_MoveValue type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK -106: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK -106: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK -106: StringTestCommon_Replace type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Replace type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK -166: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -166: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -166: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_splitter_example. -166: Return code was 0. -166: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout", "None". -166: Standard output was as expected. -166: Standard error was as expected. -158: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_textAt_indexText_saAt_indexRequire. -158: Return code was 0. -158: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/textAt_indexText_saAt_indexRequire.cpp.stdout", "None". -158: Standard output was as expected. -158: Standard error was as expected. -165: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -165: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -165: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example. -165: Return code was 0. -165: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout", "None". -165: Standard output was as expected. -165: Standard error was as expected. -159: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_misc_enumerate_strings. -159: Return code was 0. -159: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/misc/enumerate_strings.cpp.stdout", "None". -159: Standard output was as expected. -159: Standard error was as expected. -167: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -167: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -115: FileStreamTest_ReadLarge type parameter seqan::MMap >, unsigned long> > OK -164: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_nested. -164: Return code was 0. -164: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp.stdout", "None". -164: Standard output was as expected. -164: Standard error was as expected. -64: RankDictionaryPrefixTest_GetPrefixRank type parameter seqan::RankDictionary, seqan::WaveletTree, 1u, 0u> > > OK -64: ************************************** -64: Total Tests: 239 -64: Skipped: 0 -64: Errors: 0 -64: ************************************** -161: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_cyclic_shape. -168: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -168: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -174: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -174: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -139/414 Test #64: test_test_index_fm_rank_dictionary ................................................ Passed 0.79 sec -140/414 Test #151: test_demo_dox_index_getOccurrences_getFrequency_range_getFibre .................... Passed 0.18 sec -141/414 Test #155: test_demo_dox_index_mummy ......................................................... Passed 0.16 sec -142/414 Test #157: test_demo_dox_index_sufarray ...................................................... Passed 0.15 sec -143/414 Test #158: test_demo_dox_index_textAt_indexText_saAt_indexRequire ............................ Passed 0.15 sec -144/414 Test #160: test_demo_dox_misc_name_store_cache ............................................... Passed 0.14 sec -145/414 Test #162: test_demo_dox_modifier_modified_string ............................................ Passed 0.13 sec -146/414 Test #166: test_demo_dox_parallel_splitter_example ........................................... Passed 0.11 sec -147/414 Test #159: test_demo_dox_misc_enumerate_strings .............................................. Passed 0.14 sec -167: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_score_score. -167: Return code was 0. -167: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp.stdout", "None". -167: Standard output was as expected. -167: Standard error was as expected. -161: Return code was 0. -161: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp.stdout", "None". -161: Standard output was as expected. -161: Standard error was as expected. -163: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string_mod_view. -163: Return code was 0. -163: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_mod_view.cpp.stdout", "None". test 179 Start 179: test_demo_howto_scores_load_score @@ -309648,20 +308313,30 @@ 184: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp.stdout" 184: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 184: Test timeout computed to be: 10000000 +162: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +162: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +114: test_store_io_read_bam OK +114: ************************************** +114: Total Tests: 14 +114: Skipped: 0 +114: Errors: 0 +114: ************************************** +167: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +167: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +167: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_score_score. +167: Return code was 0. +167: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/score/score.cpp.stdout", "None". +167: Standard output was as expected. +167: Standard error was as expected. +143/414 Test #136: test_demo_dox_graph_algorithms_breadth_first_search ............................... Passed 0.51 sec +144/414 Test #140: test_demo_dox_graph_algorithms_floyd_warshall_algorithm ........................... Passed 0.47 sec +145/414 Test #146: test_demo_dox_graph_algorithms_transitive_closure ................................. Passed 0.43 sec test 185 Start 185: test_demo_tutorial_a_first_example_solution_2 185: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp.stdout" 185: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 185: Test timeout computed to be: 10000000 -170: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -170: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -170: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seq_io_fai_index_example. -148/414 Test #167: test_demo_dox_score_score ......................................................... Passed 0.14 sec -149/414 Test #161: test_demo_dox_modifier_cyclic_shape ............................................... Passed 0.18 sec -163: Standard output was as expected. -163: Standard error was as expected. -150/414 Test #163: test_demo_dox_modifier_modified_string_mod_view ................................... Passed 0.17 sec test 186 Start 186: test_demo_tutorial_a_first_example_solution_3 @@ -309674,201 +308349,40 @@ 187: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_4.cpp.stdout" 187: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 187: Test timeout computed to be: 10000000 -169: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -169: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -169: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_extension. -169: Return code was 0. -169: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp.stdout", "None". -169: Standard output was as expected. -169: Standard error was as expected. -106: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Replace type parameter seqan::String > > OK -106: StringTestCommon_Replace type parameter seqan::String > > OK -106: StringTestCommon_Replace type parameter seqan::String > > OK -106: StringTestCommon_Replace type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter seqan::String > OK -106: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Replace type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Replace type parameter std::vector > OK -106: StringTestCommon_Replace type parameter std::vector > OK -106: StringTestCommon_Replace type parameter std::vector > OK -106: StringTestCommon_Replace type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Replace type parameter std::deque > OK -106: StringTestCommon_Replace type parameter std::deque > OK -106: StringTestCommon_Replace type parameter std::deque > OK -106: StringTestCommon_Replace type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Replace type parameter std::forward_list > OK -106: StringTestCommon_Replace type parameter std::forward_list > OK -106: StringTestCommon_Replace type parameter std::forward_list > OK -106: StringTestCommon_Replace type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Replace type parameter std::__cxx11::list > OK -106: StringTestCommon_Replace type parameter std::__cxx11::list > OK -106: StringTestCommon_Replace type parameter std::__cxx11::list > OK -106: StringTestCommon_Reserve type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Reserve type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Reserve type parameter seqan::String > > OK -106: StringTestCommon_Reserve type parameter seqan::String > > OK -106: StringTestCommon_Reserve type parameter seqan::String > > OK -106: StringTestCommon_Reserve type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter seqan::String > OK -106: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Reserve type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Reserve type parameter std::vector > OK -106: StringTestCommon_Reserve type parameter std::vector > OK -106: StringTestCommon_Reserve type parameter std::vector > OK -106: StringTestCommon_Reserve type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Reserve type parameter std::deque > OK -106: StringTestCommon_Reserve type parameter std::deque > OK -106: StringTestCommon_Reserve type parameter std::deque > OK -106: StringTestCommon_Reserve type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Reserve type parameter std::forward_list > OK -106: StringTestCommon_Reserve type parameter std::forward_list > OK -106: StringTestCommon_Reserve type parameter std::forward_list > OK -106: StringTestCommon_Reserve type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Reserve type parameter std::__cxx11::list > OK -106: StringTestCommon_Reserve type parameter std::__cxx11::list > OK -106: StringTestCommon_Reserve type parameter std::__cxx11::list > OK -106: StringTestCommon_Resize type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Resize type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Resize type parameter seqan::String > > OK -106: StringTestCommon_Resize type parameter seqan::String > > OK -106: StringTestCommon_Resize type parameter seqan::String > > OK -106: StringTestCommon_Resize type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter seqan::String > OK -106: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Resize type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Resize type parameter std::vector > OK -106: StringTestCommon_Resize type parameter std::vector > OK -106: StringTestCommon_Resize type parameter std::vector > OK -106: StringTestCommon_Resize type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Resize type parameter std::deque > OK -106: StringTestCommon_Resize type parameter std::deque > OK -106: StringTestCommon_Resize type parameter std::deque > OK -106: StringTestCommon_Resize type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Resize type parameter std::forward_list > OK -106: StringTestCommon_Resize type parameter std::forward_list > OK -106: StringTestCommon_Resize type parameter std::forward_list > OK -106: StringTestCommon_Resize type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Resize type parameter std::__cxx11::list > OK -106: StringTestCommon_Resize type parameter std::__cxx11::list > OK -106: StringTestCommon_Resize type parameter std::__cxx11::list > OK -106: StringTestCommon_Value type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK -106: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK -106: StringTestCommon_Value type parameter seqan::String, seqan::MMap >, unsigned long> > > OK -106: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK -106: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK -106: StringTestCommon_Value type parameter seqan::String > > OK -106: StringTestCommon_Value type parameter seqan::String > > OK -106: StringTestCommon_Value type parameter seqan::String > > OK -106: StringTestCommon_Value type parameter seqan::String, seqan::Array<100ul> > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String, seqan::Block<4096ul> > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String, seqan::Alloc > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter seqan::String > OK -106: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK -106: StringTestCommon_Value type parameter std::vector, std::allocator > > OK -106: StringTestCommon_Value type parameter std::vector > OK -106: StringTestCommon_Value type parameter std::vector > OK -106: StringTestCommon_Value type parameter std::vector > OK -106: StringTestCommon_Value type parameter std::deque, std::allocator > > OK -106: StringTestCommon_Value type parameter std::deque > OK -106: StringTestCommon_Value type parameter std::deque > OK -106: StringTestCommon_Value type parameter std::deque > OK -106: StringTestCommon_Value type parameter std::forward_list, std::allocator > > OK -106: StringTestCommon_Value type parameter std::forward_list > OK -106: StringTestCommon_Value type parameter std::forward_list > OK -106: StringTestCommon_Value type parameter std::forward_list > OK -106: StringTestCommon_Value type parameter std::__cxx11::list, std::allocator > > OK -106: StringTestCommon_Value type parameter std::__cxx11::list > OK -106: StringTestCommon_Value type parameter std::__cxx11::list > OK -106: StringTestCommon_Value type parameter std::__cxx11::list > OK -106: ************************************** -106: Total Tests: 1505 -106: Skipped: 43 -106: Errors: 0 -106: ************************************** -151/414 Test #106: test_test_sequence_v2 ............................................................. Passed 0.62 sec -152/414 Test #164: test_demo_dox_modifier_modified_string_nested ..................................... Passed 0.19 sec -172: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -172: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -172: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_string2. -172: Return code was 0. -172: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout", "None". -172: Standard output was as expected. -172: Standard error was as expected. -171: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -171: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -171: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_container_view_zip. -174: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_stream_lexical_cast. -174: Return code was 0. -174: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.cpp.stdout", "None". -174: Standard output was as expected. -174: Standard error was as expected. -153/414 Test #174: test_demo_dox_stream_lexical_cast ................................................. Passed 0.11 sec +146/414 Test #114: test_test_store ................................................................... Passed 0.89 sec +147/414 Test #163: test_demo_dox_modifier_modified_string_mod_view ................................... Passed 0.23 sec +157: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_index_sufarray. +157: Return code was 0. +157: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/index/sufarray.cpp.stdout", "None". +157: Standard output was as expected. +157: Standard error was as expected. +148/414 Test #157: test_demo_dox_index_sufarray ...................................................... Passed 0.35 sec +166: Return code was 0. +166: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/splitter_example.cpp.stdout", "None". +166: Standard output was as expected. +166: Standard error was as expected. +149/414 Test #166: test_demo_dox_parallel_splitter_example ........................................... Passed 0.20 sec +164: Return code was 0. +164: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string_nested.cpp.stdout", "None". +164: Standard output was as expected. +164: Standard error was as expected. +150/414 Test #164: test_demo_dox_modifier_modified_string_nested ..................................... Passed 0.23 sec +165: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +165: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +161: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_cyclic_shape. +161: Return code was 0. +161: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/cyclic_shape.cpp.stdout", "None". +161: Standard output was as expected. +161: Standard error was as expected. +151/414 Test #161: test_demo_dox_modifier_cyclic_shape ............................................... Passed 0.29 sec +168: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +168: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +168: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_chaining. +168: Return code was 0. +168: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp.stdout", "None". +170: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +170: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +170: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seq_io_fai_index_example. 173: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 173: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 173: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_stringset. @@ -309876,21 +308390,12 @@ 173: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/stringset.cpp.stdout", "None". 173: Standard output was as expected. 173: Standard error was as expected. +169: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +169: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 175: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 175: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -175: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_align_gaps_clipping. -168: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_chaining. -168: Return code was 0. -168: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_chaining.cpp.stdout", "None". -168: Standard output was as expected. -168: Standard error was as expected. -154/414 Test #165: test_demo_dox_parallel_queue_example .............................................. Passed 0.19 sec -118: test_translation_stringset_multiframe_parallel OK -84: test_parallel_atomic_xor OK -177: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -177: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -176: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -176: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +171: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +171: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 188 Start 188: test_demo_tutorial_a_first_example_solution_5 @@ -309927,37 +308432,43 @@ 193: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp.stdout" 193: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 193: Test timeout computed to be: 10000000 +168: Standard output was as expected. +168: Standard error was as expected. +174: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +174: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +174: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_stream_lexical_cast. +177: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +177: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +177: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_filter_similar_sequences. +58: testIndexCrossCompareDnaStrings OK +58: ************************************** +58: Total Tests: 2 +58: Skipped: 0 +58: Errors: 0 +58: ************************************** +172: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +172: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +172: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_string2. +172: Return code was 0. +172: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/string2.cpp.stdout", "None". +172: Standard output was as expected. +172: Standard error was as expected. +181: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +181: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +181: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code_detailed. +181: Return code was 0. +181: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp.stdout", "None". +181: Standard output was as expected. +181: Standard error was as expected. +152/414 Test #58: test_test_index_crosscompare_dna .................................................. Passed 1.78 sec +153/414 Test #167: test_demo_dox_score_score ......................................................... Passed 0.26 sec +154/414 Test #173: test_demo_dox_sequence_stringset .................................................. Passed 0.19 sec test 194 Start 194: test_demo_tutorial_alignment_scoring_scheme_affine_dgs 194: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp.stdout" 194: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 194: Test timeout computed to be: 10000000 -114: test_store_io_split_sam OK -178: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -178: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -178: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_init_score. -178: Return code was 0. -178: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp.stdout", "None". -178: Standard output was as expected. -178: Standard error was as expected. -170: Return code was 0. -170: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp.stdout", "None". -170: Standard output was as expected. -170: Standard error was as expected. -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -179: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -179: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -179: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_load_score. -179: Return code was 0. -179: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp.stdout", "None". -179: Standard output was as expected. -179: Standard error was as expected. -155/414 Test #168: test_demo_dox_seeds_seeds_chaining ................................................ Passed 0.20 sec -156/414 Test #169: test_demo_dox_seeds_seeds_extension ............................................... Passed 0.19 sec -157/414 Test #170: test_demo_dox_seq_io_fai_index_example ............................................ Passed 0.19 sec -158/414 Test #172: test_demo_dox_sequence_string2 .................................................... Passed 0.17 sec -159/414 Test #173: test_demo_dox_sequence_stringset .................................................. Passed 0.16 sec test 195 Start 195: test_demo_tutorial_alignment_scoring_scheme_matrix @@ -309970,36 +308481,54 @@ 196: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_simple" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp.stdout" 196: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 196: Test timeout computed to be: 10000000 -test 197 - Start 197: test_demo_tutorial_alphabets_assignment_1 - -197: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp.stdout" -197: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -197: Test timeout computed to be: 10000000 -test 198 - Start 198: test_demo_tutorial_alphabets_assignment_1_solution - -198: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1_solution.cpp.stdout" -198: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -198: Test timeout computed to be: 10000000 -test 199 - Start 199: test_demo_tutorial_alphabets_example_bitsPerValue - -199: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_bitsPerValue" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_bitsPerValue.cpp.stdout" -199: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -199: Test timeout computed to be: 10000000 -160/414 Test #178: test_demo_howto_scores_init_score ................................................. Passed 0.18 sec -177: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_filter_similar_sequences. -177: Return code was 0. -177: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stderr". -177: Standard output was as expected. -177: Standard error was as expected. -161/414 Test #177: test_demo_howto_filter_similar_sequences .......................................... Passed 0.18 sec +155/414 Test #168: test_demo_dox_seeds_seeds_chaining ................................................ Passed 0.28 sec +156/414 Test #181: test_demo_tutorial_a_first_example_basic_code_detailed ............................ Passed 0.17 sec +165: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_parallel_queue_example. +165: Return code was 0. +165: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/parallel/queue_example.cpp.stdout", "None". +165: Standard output was as expected. +165: Standard error was as expected. +157/414 Test #165: test_demo_dox_parallel_queue_example .............................................. Passed 0.33 sec +182: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +182: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +182: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_code_encapsulation. +182: Return code was 0. +182: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp.stdout", "None". +182: Standard output was as expected. +182: Standard error was as expected. +158/414 Test #182: test_demo_tutorial_a_first_example_code_encapsulation ............................. Passed 0.16 sec +178: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +178: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +178: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_init_score. +178: Return code was 0. +178: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/init_score.cpp.stdout", "None". +178: Standard output was as expected. +178: Standard error was as expected. +169: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_seeds_seeds_extension. +169: Return code was 0. +169: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seeds/seeds_extension.cpp.stdout", "None". +169: Standard output was as expected. +169: Standard error was as expected. +159/414 Test #169: test_demo_dox_seeds_seeds_extension ............................................... Passed 0.27 sec +179: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +179: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +162: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_modifier_modified_string. +162: Return code was 0. +162: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/modifier/modified_string.cpp.stdout", "None". +162: Standard output was as expected. +162: Standard error was as expected. +160/414 Test #162: test_demo_dox_modifier_modified_string ............................................ Passed 0.39 sec +171: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_dox_sequence_container_view_zip. 171: Return code was 0. 171: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/sequence/container_view_zip.cpp.stdout", "None". 171: Standard output was as expected. 171: Standard error was as expected. -162/414 Test #171: test_demo_dox_sequence_container_view_zip ......................................... Passed 0.24 sec +170: Return code was 0. +170: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/seq_io/fai_index_example.cpp.stdout", "None". +170: Standard output was as expected. +170: Standard error was as expected. +161/414 Test #170: test_demo_dox_seq_io_fai_index_example ............................................ Passed 0.26 sec +175: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_align_gaps_clipping. 175: Return code was 0. 175: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/align_gaps_clipping.cpp.stdout", "None". 175: Standard output was as expected. @@ -310007,10 +308536,9 @@ 180: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 180: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 180: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code. -180: Return code was 0. -180: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.cpp.stdout", "None". -180: Standard output was as expected. -180: Standard error was as expected. +176: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +176: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +106: StringTestCommon_LessOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK 184: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 184: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 184: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_1. @@ -310018,61 +308546,27 @@ 184: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_1.cpp.stdout", "None". 184: Standard output was as expected. 184: Standard error was as expected. -176: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_custom_file_endings. -176: Return code was 0. -176: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp.stdout", "None". -176: Standard output was as expected. -176: Standard error was as expected. -163/414 Test #176: test_demo_howto_custom_file_endings ............................................... Passed 0.19 sec -186: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -186: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -186: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_3. -186: Return code was 0. -186: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp.stdout", "None". -186: Standard output was as expected. -186: Standard error was as expected. -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -181: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -181: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -181: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_basic_code_detailed. -181: Return code was 0. -181: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code_detailed.cpp.stdout", "None". -181: Standard output was as expected. -181: Standard error was as expected. -182: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -182: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -182: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_code_encapsulation. -182: Return code was 0. -182: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/code_encapsulation.cpp.stdout", "None". -182: Standard output was as expected. -182: Standard error was as expected. -183: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -183: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -183: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_final_result. -183: Return code was 0. -183: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp.stdout", "None". -183: Standard output was as expected. -183: Standard error was as expected. -66: IndexTest_IndexCreate type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_Length type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::FMIndex > > OK -188: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -188: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -188: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_5. -188: Return code was 0. -188: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout", "None". -188: Standard output was as expected. -188: Standard error was as expected. +185: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +185: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +86: test_pipe_test_mapper OK +test 197 + Start 197: test_demo_tutorial_alphabets_assignment_1 + +197: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp.stdout" +197: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +197: Test timeout computed to be: 10000000 +test 198 + Start 198: test_demo_tutorial_alphabets_assignment_1_solution + +198: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1_solution.cpp.stdout" +198: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +198: Test timeout computed to be: 10000000 +test 199 + Start 199: test_demo_tutorial_alphabets_example_bitsPerValue + +199: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_bitsPerValue" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_bitsPerValue.cpp.stdout" +199: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +199: Test timeout computed to be: 10000000 test 200 Start 200: test_demo_tutorial_alphabets_example_ordValue @@ -310097,65 +308591,34 @@ 203: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basic_techniques_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basic_techniques/base.cpp.stdout" 203: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 203: Test timeout computed to be: 10000000 +174: Return code was 0. +174: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/dox/stream/lexical_cast.cpp.stdout", "None". +174: Standard output was as expected. +174: Standard error was as expected. +177: Return code was 0. +177: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/filter_similar_sequences.cpp.stderr". +177: Standard output was as expected. +177: Standard error was as expected. 187: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 187: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 187: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_4. -189: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -189: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -71: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexSa > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexEsa > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::FMIndex > > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexSa > OK -71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexEsa > OK -71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::FMIndex > > OK -71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexSa > OK -71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexEsa > OK -71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::FMIndex > > OK -71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -71: ************************************** -71: Total Tests: 32 -71: Skipped: 0 -71: Errors: 0 -71: ************************************** -185: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -185: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -185: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_2. -115: FileStreamTest_WriteLarge type parameter seqan::Async OK +187: Return code was 0. +187: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_4.cpp.stdout", "None". +187: Standard output was as expected. +187: Standard error was as expected. 191: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 191: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 191: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align_assignment1. -86: test_pipe_test_mapper OK -114: test_store_io_read_bam OK -114: ************************************** -114: Total Tests: 14 -114: Skipped: 0 -114: Errors: 0 -114: ************************************** -192: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -192: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -164/414 Test #71: test_test_index_finder ............................................................ Passed 0.95 sec -165/414 Test #175: test_demo_howto_align_gaps_clipping ............................................... Passed 0.22 sec -166/414 Test #179: test_demo_howto_scores_load_score ................................................. Passed 0.18 sec -167/414 Test #180: test_demo_tutorial_a_first_example_basic_code ..................................... Passed 0.18 sec -168/414 Test #181: test_demo_tutorial_a_first_example_basic_code_detailed ............................ Passed 0.17 sec -169/414 Test #183: test_demo_tutorial_a_first_example_final_result ................................... Passed 0.16 sec -170/414 Test #184: test_demo_tutorial_a_first_example_solution_1 ..................................... Passed 0.15 sec -171/414 Test #186: test_demo_tutorial_a_first_example_solution_3 ..................................... Passed 0.14 sec +191: Return code was 0. +191: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp.stdout", "None". +191: Standard output was as expected. +191: Standard error was as expected. +162/414 Test #171: test_demo_dox_sequence_container_view_zip ......................................... Passed 0.34 sec +163/414 Test #172: test_demo_dox_sequence_string2 .................................................... Passed 0.33 sec +164/414 Test #175: test_demo_howto_align_gaps_clipping ............................................... Passed 0.31 sec +165/414 Test #177: test_demo_howto_filter_similar_sequences .......................................... Passed 0.29 sec +166/414 Test #178: test_demo_howto_scores_init_score ................................................. Passed 0.28 sec +118: test_translation_stringset_multiframe_parallel OK test 204 Start 204: test_demo_tutorial_basics_allocator @@ -310186,42 +308649,37 @@ 208: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp.stdout" 208: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 208: Test timeout computed to be: 10000000 -test 209 - Start 209: test_demo_tutorial_bed_io_example1 - -209: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp.stdout" -209: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -209: Test timeout computed to be: 10000000 -test 210 - Start 210: test_demo_tutorial_bed_io_solution1 - -210: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution1.cpp.stdout" -210: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -210: Test timeout computed to be: 10000000 -test 211 - Start 211: test_demo_tutorial_bed_io_solution2 - -211: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp.stdout" -211: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -211: Test timeout computed to be: 10000000 -187: Return code was 0. -187: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_4.cpp.stdout", "None". -187: Standard output was as expected. -187: Standard error was as expected. +167/414 Test #174: test_demo_dox_stream_lexical_cast ................................................. Passed 0.36 sec +168/414 Test #187: test_demo_tutorial_a_first_example_solution_4 ..................................... Passed 0.26 sec +169/414 Test #191: test_demo_tutorial_alignment_align_assignment1 .................................... Passed 0.20 sec +185: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_2. 185: Return code was 0. 185: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_2.cpp.stdout", "None". 185: Standard output was as expected. 185: Standard error was as expected. -172/414 Test #114: test_test_store ................................................................... Passed 2.25 sec -173/414 Test #182: test_demo_tutorial_a_first_example_code_encapsulation ............................. Passed 1.73 sec -79: .................................................................................................... -79: test_map_map OK -79: ************************************** -79: Total Tests: 1 -79: Skipped: 0 -79: Errors: 0 -79: ************************************** -174/414 Test #79: test_test_map ..................................................................... Passed 2.47 sec +170/414 Test #185: test_demo_tutorial_a_first_example_solution_2 ..................................... Passed 0.27 sec +189: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +189: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +189: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_6. +189: Return code was 0. +189: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp.stdout", "None". +189: Standard output was as expected. +189: Standard error was as expected. +171/414 Test #189: test_demo_tutorial_a_first_example_solution_6 ..................................... Passed 0.23 sec +183: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +183: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +180: Return code was 0. +180: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/basic_code.cpp.stdout", "None". +180: Standard output was as expected. +180: Standard error was as expected. +172/414 Test #180: test_demo_tutorial_a_first_example_basic_code ..................................... Passed 0.31 sec +186: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +186: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +186: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_3. +186: Return code was 0. +186: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_3.cpp.stdout", "None". +186: Standard output was as expected. +186: Standard error was as expected. 190: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 190: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 190: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_align. @@ -310229,6 +308687,26 @@ 190: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align.cpp.stdout", "None". 190: Standard output was as expected. 190: Standard error was as expected. +176: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_custom_file_endings. +176: Return code was 0. +176: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/custom_file_endings.cpp.stdout", "None". +176: Standard output was as expected. +176: Standard error was as expected. +173/414 Test #176: test_demo_howto_custom_file_endings ............................................... Passed 0.35 sec +174/414 Test #184: test_demo_tutorial_a_first_example_solution_1 ..................................... Passed 0.28 sec +192: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +192: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +192: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph. +192: Return code was 0. +192: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp.stdout", "None". +192: Standard output was as expected. +192: Standard error was as expected. +175/414 Test #192: test_demo_tutorial_alignment_graph ................................................ Passed 0.19 sec +179: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_howto_scores_load_score. +179: Return code was 0. +179: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/howto/scores/load_score.cpp.stdout", "None". +179: Standard output was as expected. +179: Standard error was as expected. 193: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 193: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 193: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph_assignment1. @@ -310236,15 +308714,50 @@ 193: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph_assignment1.cpp.stdout", "None". 193: Standard output was as expected. 193: Standard error was as expected. -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -197: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -197: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -197: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1. -197: Return code was 0. -197: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp.stdout", "None". -197: Standard output was as expected. -197: Standard error was as expected. +195: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +195: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +195: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_matrix. +195: Return code was 0. +195: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp.stdout", "None". +195: Standard output was as expected. +195: Standard error was as expected. +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +115: FileStreamTest_WriteLarge type parameter seqan::Async OK +66: IndexTest_IndexCreate type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_Length type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::FMIndex > > OK +194: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +194: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +188: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +188: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +test 209 + Start 209: test_demo_tutorial_bed_io_example1 + +209: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp.stdout" +209: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +209: Test timeout computed to be: 10000000 +test 210 + Start 210: test_demo_tutorial_bed_io_solution1 + +210: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution1.cpp.stdout" +210: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +210: Test timeout computed to be: 10000000 +test 211 + Start 211: test_demo_tutorial_bed_io_solution2 + +211: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp.stdout" +211: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +211: Test timeout computed to be: 10000000 test 212 Start 212: test_demo_tutorial_bed_io_solution3 @@ -310263,113 +308776,6 @@ 214: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_write_assignment" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stderr" 214: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 214: Test timeout computed to be: 10000000 -189: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_6. -189: Return code was 0. -189: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_6.cpp.stdout", "None". -189: Standard output was as expected. -189: Standard error was as expected. -191: Return code was 0. -191: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/align_assignment1.cpp.stdout", "None". -191: Standard output was as expected. -191: Standard error was as expected. -192: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_graph. -192: Return code was 0. -192: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/graph.cpp.stdout", "None". -192: Standard output was as expected. -192: Standard error was as expected. -194: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -194: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -194: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs. -194: Return code was 0. -194: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp.stdout", "None". -194: Standard output was as expected. -194: Standard error was as expected. -84: test_parallel_atomic_cas OK -201: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -201: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -201: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_size. -201: Return code was 0. -201: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp.stdout", "None". -201: Standard output was as expected. -201: Standard error was as expected. -200: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -200: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -200: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_ordValue. -200: Return code was 0. -200: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_ordValue.cpp.stdout", "None". -200: Standard output was as expected. -200: Standard error was as expected. -196: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -196: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -196: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_simple. -196: Return code was 0. -196: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp.stdout", "None". -196: Standard output was as expected. -196: Standard error was as expected. -199: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -199: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -199: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_bitsPerValue. -199: Return code was 0. -199: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_bitsPerValue.cpp.stdout", "None". -199: Standard output was as expected. -199: Standard error was as expected. -195: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -195: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -195: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_matrix. -195: Return code was 0. -195: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_matrix.cpp.stdout", "None". -195: Standard output was as expected. -195: Standard error was as expected. -24: test_alignment_free_alignment_free_comparison OK -24: test_alignment_free_count_kmers OK -24: test_alignment_free_calculate_periodicity OK -24: test_alignment_free_calculate_overlap_indicator OK -24: test_alignment_free_string_to_string_set OK -24: test_alignment_free_cut_ns OK -24: ************************************** -24: Total Tests: 14 -24: Skipped: 0 -24: Errors: 0 -24: ************************************** -202: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -202: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -202: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_background_and_motivation_example. -202: Return code was 0. -202: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp.stdout", "None". -202: Standard output was as expected. -202: Standard error was as expected. -198: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -198: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -198: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1_solution. -198: Return code was 0. -198: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1_solution.cpp.stdout", "None". -198: Standard output was as expected. -198: Standard error was as expected. -86: test_pipe_test_mapper_partially_filled OK -69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::FMIndex > > OK -203: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -203: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -204: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -204: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -204: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_allocator. -207: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -207: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -175/414 Test #24: test_test_alignment_free .......................................................... Passed 2.65 sec -176/414 Test #185: test_demo_tutorial_a_first_example_solution_2 ..................................... Passed 1.74 sec -177/414 Test #187: test_demo_tutorial_a_first_example_solution_4 ..................................... Passed 1.72 sec -178/414 Test #188: test_demo_tutorial_a_first_example_solution_5 ..................................... Passed 1.70 sec -179/414 Test #189: test_demo_tutorial_a_first_example_solution_6 ..................................... Passed 1.69 sec -180/414 Test #190: test_demo_tutorial_alignment_align ................................................ Passed 1.69 sec -181/414 Test #191: test_demo_tutorial_alignment_align_assignment1 .................................... Passed 1.68 sec -182/414 Test #192: test_demo_tutorial_alignment_graph ................................................ Passed 1.68 sec -183/414 Test #193: test_demo_tutorial_alignment_graph_assignment1 .................................... Passed 1.67 sec -184/414 Test #197: test_demo_tutorial_alphabets_assignment_1 ......................................... Passed 1.63 sec -185/414 Test #200: test_demo_tutorial_alphabets_example_ordValue ..................................... Passed 1.61 sec test 215 Start 215: test_demo_tutorial_consensus_alignment_with_positions @@ -310388,6 +308794,30 @@ 217: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout" 217: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 217: Test timeout computed to be: 10000000 +198: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +198: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +198: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1_solution. +198: Return code was 0. +198: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1_solution.cpp.stdout", "None". +198: Standard output was as expected. +198: Standard error was as expected. +200: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +200: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +200: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_ordValue. +200: Return code was 0. +200: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_ordValue.cpp.stdout", "None". +200: Standard output was as expected. +200: Standard error was as expected. +201: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +201: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +201: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_size. +201: Return code was 0. +201: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_size.cpp.stdout", "None". +201: Standard output was as expected. +201: Standard error was as expected. +176/414 Test #179: test_demo_howto_scores_load_score ................................................. Passed 0.39 sec +177/414 Test #190: test_demo_tutorial_alignment_align ................................................ Passed 0.28 sec +178/414 Test #195: test_demo_tutorial_alignment_scoring_scheme_matrix ................................ Passed 0.23 sec test 218 Start 218: test_demo_tutorial_file_io_overview_solution1 @@ -310406,6 +308836,52 @@ 220: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp.stdout" 220: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 220: Test timeout computed to be: 10000000 +183: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_final_result. +183: Return code was 0. +183: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/final_result.cpp.stdout", "None". +183: Standard output was as expected. +183: Standard error was as expected. +179/414 Test #183: test_demo_tutorial_a_first_example_final_result ................................... Passed 0.39 sec +194: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_affine_dgs. +194: Return code was 0. +194: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_affine_dgs.cpp.stdout", "None". +194: Standard output was as expected. +194: Standard error was as expected. +180/414 Test #194: test_demo_tutorial_alignment_scoring_scheme_affine_dgs ............................ Passed 0.27 sec +181/414 Test #193: test_demo_tutorial_alignment_graph_assignment1 .................................... Passed 0.28 sec +202: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +202: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +202: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_background_and_motivation_example. +202: Return code was 0. +202: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/background_and_motivation/example.cpp.stdout", "None". +203: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +203: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +203: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basic_techniques_base. +203: Return code was 0. +203: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basic_techniques/base.cpp.stdout", "None". +203: Standard output was as expected. +203: Standard error was as expected. +182/414 Test #186: test_demo_tutorial_a_first_example_solution_3 ..................................... Passed 0.36 sec +188: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_a_first_example_solution_5. +188: Return code was 0. +188: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/a_first_example/solution_5.cpp.stdout", "None". +188: Standard output was as expected. +188: Standard error was as expected. +207: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +207: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +207: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_strings. +207: Return code was 0. +207: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp.stdout", "None". +207: Standard output was as expected. +207: Standard error was as expected. +199: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +199: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +84: test_parallel_atomic_xor OK +206: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +206: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +206: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_show_alphabets. +204: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +204: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 221 Start 221: test_demo_tutorial_fragment_store_access_aligned_reads @@ -310430,17 +308906,8 @@ 224: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_display_aligned_reads" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp.stdout" 224: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 224: Test timeout computed to be: 10000000 -test 225 - Start 225: test_demo_tutorial_generic_programming_example_hashing - -225: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_example_hashing" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp.stdout" -225: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -225: Test timeout computed to be: 10000000 -186/414 Test #194: test_demo_tutorial_alignment_scoring_scheme_affine_dgs ............................ Passed 1.71 sec -187/414 Test #201: test_demo_tutorial_alphabets_example_size ......................................... Passed 1.65 sec -188/414 Test #196: test_demo_tutorial_alignment_scoring_scheme_simple ................................ Passed 1.69 sec -189/414 Test #195: test_demo_tutorial_alignment_scoring_scheme_matrix ................................ Passed 1.70 sec -190/414 Test #202: test_demo_tutorial_background_and_motivation_example .............................. Passed 1.64 sec +202: Standard output was as expected. +202: Standard error was as expected. 205: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 205: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 205: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_base. @@ -310448,27 +308915,18 @@ 205: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/base.cpp.stdout", "None". 205: Standard output was as expected. 205: Standard error was as expected. -206: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -206: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -206: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_show_alphabets. -206: Return code was 0. -206: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.cpp.stdout", "None". -206: Standard output was as expected. -206: Standard error was as expected. -208: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -208: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -208: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_base. -208: Return code was 0. -208: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp.stdout", "None". -208: Standard output was as expected. -208: Standard error was as expected. -209: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -209: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -209: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1. -209: Return code was 0. -209: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp.stdout", "None". -209: Standard output was as expected. -209: Standard error was as expected. +213: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +213: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +183/414 Test #188: test_demo_tutorial_a_first_example_solution_5 ..................................... Passed 0.37 sec +184/414 Test #198: test_demo_tutorial_alphabets_assignment_1_solution ................................ Passed 0.23 sec +185/414 Test #200: test_demo_tutorial_alphabets_example_ordValue ..................................... Passed 0.22 sec +186/414 Test #201: test_demo_tutorial_alphabets_example_size ......................................... Passed 0.21 sec +test 225 + Start 225: test_demo_tutorial_generic_programming_example_hashing + +225: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_example_hashing" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp.stdout" +225: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +225: Test timeout computed to be: 10000000 test 226 Start 226: test_demo_tutorial_generic_programming_template_subclassing @@ -310487,6 +308945,29 @@ 228: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp.stdout" 228: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 228: Test timeout computed to be: 10000000 +206: Return code was 0. +206: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/show_alphabets.cpp.stdout", "None". +206: Standard output was as expected. +206: Standard error was as expected. +196: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +196: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +187/414 Test #203: test_demo_tutorial_basic_techniques_base .......................................... Passed 0.24 sec +208: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +208: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +208: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_base. +208: Return code was 0. +208: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/base.cpp.stdout", "None". +208: Standard output was as expected. +208: Standard error was as expected. +188/414 Test #207: test_demo_tutorial_basics_strings ................................................. Passed 0.21 sec +218: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +218: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +218: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1. +204: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_allocator. +209: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +209: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +197: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +197: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 229 Start 229: test_demo_tutorial_genome_annotations_assignment_2_solution @@ -310499,45 +308980,53 @@ 230: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_3_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp.stdout" 230: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 230: Test timeout computed to be: 10000000 -191/414 Test #205: test_demo_tutorial_basics_base .................................................... Passed 1.59 sec -192/414 Test #206: test_demo_tutorial_basics_show_alphabets .......................................... Passed 1.59 sec -193/414 Test #208: test_demo_tutorial_bed_io_base .................................................... Passed 1.58 sec -194/414 Test #209: test_demo_tutorial_bed_io_example1 ................................................ Passed 0.11 sec -195/414 Test #198: test_demo_tutorial_alphabets_assignment_1_solution ................................ Passed 1.69 sec -203: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basic_techniques_base. -203: Return code was 0. -203: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basic_techniques/base.cpp.stdout", "None". -203: Standard output was as expected. -203: Standard error was as expected. -196/414 Test #203: test_demo_tutorial_basic_techniques_base .......................................... Passed 1.66 sec -197/414 Test #199: test_demo_tutorial_alphabets_example_bitsPerValue ................................. Passed 1.69 sec -207: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_basics_strings. -207: Return code was 0. -207: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/strings.cpp.stdout", "None". -207: Standard output was as expected. -207: Standard error was as expected. -198/414 Test #207: test_demo_tutorial_basics_strings ................................................. Passed 1.59 sec -212: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -212: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -212: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution3. -212: Return code was 0. -212: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution3.cpp.stdout", "None". -212: Standard output was as expected. -212: Standard error was as expected. +199: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_example_bitsPerValue. +199: Return code was 0. +199: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/example_bitsPerValue.cpp.stdout", "None". +199: Standard output was as expected. +199: Standard error was as expected. +216: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +216: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +216: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_without_positions. +216: Return code was 0. +216: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout", "None". +216: Standard output was as expected. +216: Standard error was as expected. 211: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 211: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 211: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution2. +215: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +215: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +213: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_read_assignment. +213: Return code was 0. +213: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stderr". +213: Standard output was as expected. +213: Standard error was as expected. +220: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +220: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +220: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution3. +210: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +210: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +217: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +217: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 214: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 214: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 214: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_write_assignment. -214: Return code was 0. -214: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stderr". -213: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -213: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -213: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_blast_io_read_assignment. -215: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -215: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -215: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_with_positions. +221: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +221: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +221: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads. +223: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +223: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +223: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_base. +223: Return code was 0. +223: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp.stdout", "None". +223: Standard output was as expected. +223: Standard error was as expected. +189/414 Test #202: test_demo_tutorial_background_and_motivation_example .............................. Passed 0.29 sec +190/414 Test #205: test_demo_tutorial_basics_base .................................................... Passed 0.26 sec +191/414 Test #206: test_demo_tutorial_basics_show_alphabets .......................................... Passed 0.26 sec +192/414 Test #208: test_demo_tutorial_bed_io_base .................................................... Passed 0.24 sec +193/414 Test #213: test_demo_tutorial_blast_io_read_assignment ....................................... Passed 0.20 sec test 231 Start 231: test_demo_tutorial_genome_annotations_assignment_4_solution @@ -310568,6 +309057,50 @@ 235: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp.stdout" 235: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 235: Test timeout computed to be: 10000000 +194/414 Test #199: test_demo_tutorial_alphabets_example_bitsPerValue ................................. Passed 0.37 sec +195/414 Test #216: test_demo_tutorial_consensus_alignment_without_positions .......................... Passed 0.22 sec +211: Return code was 0. +211: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp.stdout", "None". +211: Standard output was as expected. +211: Standard error was as expected. +217: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1. +214: Return code was 0. +214: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/write_assignment.cpp.stderr". +214: Standard output was as expected. +214: Standard error was as expected. +69: TopDownIndexIteratorTest_Constructor type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::FMIndex > > OK +196: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alignment_scoring_scheme_simple. +196: Return code was 0. +196: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alignment/scoring_scheme_simple.cpp.stdout", "None". +196: Standard output was as expected. +196: Standard error was as expected. +209: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_example1. +209: Return code was 0. +209: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/example1.cpp.stdout", "None". +209: Standard output was as expected. +209: Standard error was as expected. +224: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +224: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +197: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_alphabets_assignment_1. +197: Return code was 0. +197: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/alphabets/assignment_1.cpp.stdout", "None". +197: Standard output was as expected. +197: Standard error was as expected. +227: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +227: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +227: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_hint. +222: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +222: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +222: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads2. +225: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +225: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +219: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +219: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 236 Start 236: test_demo_tutorial_gff_and_gtf_io_solution1 @@ -310580,93 +309113,41 @@ 237: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution2.cpp.stdout" 237: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 237: Test timeout computed to be: 10000000 -test 238 - Start 238: test_demo_tutorial_gff_and_gtf_io_solution3 - -238: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp.stdout" -238: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -238: Test timeout computed to be: 10000000 -210: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -210: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +218: Return code was 0. +218: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout", "None". +218: Standard output was as expected. +218: Standard error was as expected. +229: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +229: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +221: Return code was 0. +221: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp.stdout", "None". +221: Standard output was as expected. +221: Standard error was as expected. 210: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution1. 210: Return code was 0. 210: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution1.cpp.stdout", "None". 210: Standard output was as expected. 210: Standard error was as expected. -115: FileStreamTest_WriteLarge type parameter seqan::MMap >, unsigned long> > OK -218: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -218: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -218: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution1. -214: Standard output was as expected. -214: Standard error was as expected. +215: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_with_positions. 215: Return code was 0. 215: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/with_positions.cpp.stdout", "None". 215: Standard output was as expected. 215: Standard error was as expected. -216: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -216: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -216: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_consensus_alignment_without_positions. -213: Return code was 0. -213: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/blast_io/read_assignment.cpp.stderr". -213: Standard output was as expected. -213: Standard error was as expected. -211: Return code was 0. -211: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution2.cpp.stdout", "None". -211: Standard output was as expected. -211: Standard error was as expected. -224: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -224: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -224: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_display_aligned_reads. -222: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -222: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -222: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads2. -223: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -223: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -223: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_base. -223: Return code was 0. -223: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/base.cpp.stdout", "None". -223: Standard output was as expected. -223: Standard error was as expected. -220: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -220: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -220: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution3. -219: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -219: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -219: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution2. -217: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -217: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -221: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -221: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -221: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_access_aligned_reads. -118: test_translation_stringset_multiframe_concatdirect_parallel OK -118: ************************************** -118: Total Tests: 10 -118: Skipped: 0 -118: Errors: 0 -118: ************************************** -227: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -227: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -227: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_hint. -84: test_parallel_atomic_min OK -228: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -228: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -225: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -225: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 226: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 226: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -231: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -231: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -199/414 Test #118: test_translation .................................................................. Passed 2.40 sec -200/414 Test #210: test_demo_tutorial_bed_io_solution1 ............................................... Passed 0.16 sec -201/414 Test #211: test_demo_tutorial_bed_io_solution2 ............................................... Passed 0.16 sec -202/414 Test #212: test_demo_tutorial_bed_io_solution3 ............................................... Passed 0.15 sec -203/414 Test #213: test_demo_tutorial_blast_io_read_assignment ....................................... Passed 0.14 sec -204/414 Test #214: test_demo_tutorial_blast_io_write_assignment ...................................... Passed 0.14 sec -205/414 Test #215: test_demo_tutorial_consensus_alignment_with_positions ............................. Passed 0.13 sec -206/414 Test #223: test_demo_tutorial_fragment_store_base ............................................ Passed 0.10 sec -216: Return code was 0. -216: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/consensus_alignment/without_positions.cpp.stdout", "None". -228: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_solution. +196/414 Test #196: test_demo_tutorial_alignment_scoring_scheme_simple ................................ Passed 0.44 sec +197/414 Test #197: test_demo_tutorial_alphabets_assignment_1 ......................................... Passed 0.42 sec +198/414 Test #209: test_demo_tutorial_bed_io_example1 ................................................ Passed 0.29 sec +199/414 Test #211: test_demo_tutorial_bed_io_solution2 ............................................... Passed 0.27 sec +200/414 Test #214: test_demo_tutorial_blast_io_write_assignment ...................................... Passed 0.25 sec +201/414 Test #218: test_demo_tutorial_file_io_overview_solution1 ..................................... Passed 0.22 sec +202/414 Test #223: test_demo_tutorial_fragment_store_base ............................................ Passed 0.17 sec +test 238 + Start 238: test_demo_tutorial_gff_and_gtf_io_solution3 + +238: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp.stdout" +238: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +238: Test timeout computed to be: 10000000 test 239 Start 239: test_demo_tutorial_graph_graph_algo_scc @@ -310703,129 +309184,63 @@ 244: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp.stdout" 244: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 244: Test timeout computed to be: 10000000 +203/414 Test #221: test_demo_tutorial_fragment_store_access_aligned_reads ............................ Passed 0.25 sec +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +227: Return code was 0. +227: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp.stdout", "None". +227: Standard output was as expected. +227: Standard error was as expected. test 245 Start 245: test_demo_tutorial_index_iterators_index_bidirectional_search 245: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout" 245: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 245: Test timeout computed to be: 10000000 -test 246 - Start 246: test_demo_tutorial_index_iterators_index_preorder - -246: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_preorder" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp.stdout" -246: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -246: Test timeout computed to be: 10000000 -216: Standard output was as expected. -216: Standard error was as expected. -228: Return code was 0. -228: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp.stdout", "None". -228: Standard output was as expected. -228: Standard error was as expected. -227: Return code was 0. -227: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_hint.cpp.stdout", "None". -227: Standard output was as expected. -227: Standard error was as expected. -217: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_example1. -229: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -229: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -229: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_2_solution. -229: Return code was 0. -229: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp.stdout", "None". -229: Standard output was as expected. -229: Standard error was as expected. -225: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_example_hashing. -225: Return code was 0. -225: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp.stdout", "None". -225: Standard output was as expected. -225: Standard error was as expected. -233: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -233: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -233: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_base. -233: Return code was 0. -233: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp.stdout", "None". -233: Standard output was as expected. -233: Standard error was as expected. -231: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_4_solution. -231: Return code was 0. -231: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_solution.cpp.stdout", "None". -231: Standard output was as expected. -231: Standard error was as expected. -218: Return code was 0. -218: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution1.cpp.stdout", "None". -218: Standard output was as expected. -218: Standard error was as expected. -221: Return code was 0. -221: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads.cpp.stdout", "None". -221: Standard output was as expected. -221: Standard error was as expected. -224: Return code was 0. -224: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp.stdout", "None". -224: Standard output was as expected. -224: Standard error was as expected. 230: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 230: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 230: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_3_solution. 230: Return code was 0. 230: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_3_solution.cpp.stdout", "None". -230: Standard output was as expected. -230: Standard error was as expected. +224: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_fragment_store_display_aligned_reads. +224: Return code was 0. +224: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/display_aligned_reads.cpp.stdout", "None". +224: Standard output was as expected. +224: Standard error was as expected. +229: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_2_solution. +229: Return code was 0. +229: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_2_solution.cpp.stdout", "None". +229: Standard output was as expected. +229: Standard error was as expected. +228: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +228: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +226: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_template_subclassing. +226: Return code was 0. +226: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp.stdout", "None". +226: Standard output was as expected. +226: Standard error was as expected. 232: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 232: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -232: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_base. -222: Return code was 0. -222: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp.stdout", "None". -222: Standard output was as expected. -222: Standard error was as expected. 220: Return code was 0. 220: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution3.cpp.stdout", "None". 220: Standard output was as expected. 220: Standard error was as expected. -235: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -235: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -235: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example2. -235: Return code was 0. -235: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp.stdout", "None". -235: Standard output was as expected. -235: Standard error was as expected. +219: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_file_io_overview_solution2. 236: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 236: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -236: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution1. -115: FileStreamTest_SeekLarge type parameter seqan::Async OK -234: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -234: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -219: Return code was 0. -219: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp.stdout", "None". -219: Standard output was as expected. -219: Standard error was as expected. -204: Return code was 0. -204: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp.stdout", "None". -204: Standard output was as expected. -204: Standard error was as expected. -226: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_template_subclassing. -226: Return code was 0. -226: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/template_subclassing.cpp.stdout", "None". -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK -207/414 Test #216: test_demo_tutorial_consensus_alignment_without_positions .......................... Passed 0.17 sec -208/414 Test #218: test_demo_tutorial_file_io_overview_solution1 ..................................... Passed 0.16 sec -209/414 Test #219: test_demo_tutorial_file_io_overview_solution2 ..................................... Passed 0.16 sec -210/414 Test #220: test_demo_tutorial_file_io_overview_solution3 ..................................... Passed 0.16 sec -211/414 Test #221: test_demo_tutorial_fragment_store_access_aligned_reads ............................ Passed 0.15 sec -212/414 Test #222: test_demo_tutorial_fragment_store_access_aligned_reads2 ........................... Passed 0.15 sec -213/414 Test #224: test_demo_tutorial_fragment_store_display_aligned_reads ........................... Passed 0.14 sec -214/414 Test #225: test_demo_tutorial_generic_programming_example_hashing ............................ Passed 0.14 sec -215/414 Test #227: test_demo_tutorial_genome_annotations_assignment_1_hint ........................... Passed 0.13 sec -216/414 Test #228: test_demo_tutorial_genome_annotations_assignment_1_solution ....................... Passed 0.13 sec -217/414 Test #231: test_demo_tutorial_genome_annotations_assignment_4_solution ....................... Passed 0.12 sec -218/414 Test #233: test_demo_tutorial_gff_and_gtf_io_base ............................................ Passed 0.09 sec -236: Return code was 0. -236: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp.stdout", "None". -236: Standard output was as expected. -236: Standard error was as expected. -226: Standard output was as expected. -226: Standard error was as expected. -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +106: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +237: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +237: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +204/414 Test #210: test_demo_tutorial_bed_io_solution1 ............................................... Passed 0.35 sec +205/414 Test #215: test_demo_tutorial_consensus_alignment_with_positions ............................. Passed 0.31 sec +206/414 Test #220: test_demo_tutorial_file_io_overview_solution3 ..................................... Passed 0.27 sec +207/414 Test #226: test_demo_tutorial_generic_programming_template_subclassing ....................... Passed 0.22 sec +208/414 Test #227: test_demo_tutorial_genome_annotations_assignment_1_hint ........................... Passed 0.19 sec +test 246 + Start 246: test_demo_tutorial_index_iterators_index_preorder + +246: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_preorder" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp.stdout" +246: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +246: Test timeout computed to be: 10000000 test 247 Start 247: test_demo_tutorial_index_iterators_index_property_maps @@ -310850,12 +309265,48 @@ 250: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp.stdout" 250: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 250: Test timeout computed to be: 10000000 +209/414 Test #229: test_demo_tutorial_genome_annotations_assignment_2_solution ....................... Passed 0.20 sec +225: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_generic_programming_example_hashing. +225: Return code was 0. +225: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/generic_programming/example_hashing.cpp.stdout", "None". +225: Standard output was as expected. +225: Standard error was as expected. test 251 Start 251: test_demo_tutorial_index_iterators_iterator_solution1 251: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp.stdout" 251: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 251: Test timeout computed to be: 10000000 +230: Standard output was as expected. +230: Standard error was as expected. +233: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +233: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +239: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +239: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +232: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_base. +232: Return code was 0. +232: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp.stdout", "None". +232: Standard output was as expected. +232: Standard error was as expected. +222: Return code was 0. +222: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/fragment_store/access_aligned_reads2.cpp.stdout", "None". +222: Standard output was as expected. +222: Standard error was as expected. +237: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution2. +237: Return code was 0. +237: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution2.cpp.stdout", "None". +237: Standard output was as expected. +237: Standard error was as expected. +234: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +234: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +235: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +235: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +231: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +231: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +210/414 Test #222: test_demo_tutorial_fragment_store_access_aligned_reads2 ........................... Passed 0.29 sec +211/414 Test #224: test_demo_tutorial_fragment_store_display_aligned_reads ........................... Passed 0.28 sec +212/414 Test #225: test_demo_tutorial_generic_programming_example_hashing ............................ Passed 0.27 sec +213/414 Test #230: test_demo_tutorial_genome_annotations_assignment_3_solution ....................... Passed 0.20 sec test 252 Start 252: test_demo_tutorial_index_iterators_iterator_solution2 @@ -310880,6 +309331,16 @@ 255: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stdout" "--stderr-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stderr" 255: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 255: Test timeout computed to be: 10000000 +214/414 Test #232: test_demo_tutorial_genome_annotations_base ........................................ Passed 0.19 sec +215/414 Test #237: test_demo_tutorial_gff_and_gtf_io_solution2 ....................................... Passed 0.16 sec +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +241: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +241: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +241: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_hmm. +241: Return code was 0. +241: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout", "None". +241: Standard output was as expected. +241: Standard error was as expected. test 256 Start 256: test_demo_tutorial_indexed_fasta_io_solution2 @@ -310892,122 +309353,68 @@ 257: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.cpp.stdout" 257: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 257: Test timeout computed to be: 10000000 -237: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -237: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -237: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution2. -237: Return code was 0. -237: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution2.cpp.stdout", "None". -237: Standard output was as expected. -237: Standard error was as expected. -219/414 Test #236: test_demo_tutorial_gff_and_gtf_io_solution1 ....................................... Passed 0.15 sec -220/414 Test #226: test_demo_tutorial_generic_programming_template_subclassing ....................... Passed 0.22 sec -test 258 - Start 258: test_demo_tutorial_indices_assignment_2 - -258: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp.stdout" -258: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -258: Test timeout computed to be: 10000000 -221/414 Test #237: test_demo_tutorial_gff_and_gtf_io_solution2 ....................................... Passed 0.15 sec -222/414 Test #229: test_demo_tutorial_genome_annotations_assignment_2_solution ....................... Passed 0.22 sec -232: Return code was 0. -232: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/base.cpp.stdout", "None". -232: Standard output was as expected. -232: Standard error was as expected. -223/414 Test #232: test_demo_tutorial_genome_annotations_base ........................................ Passed 0.19 sec -224/414 Test #204: test_demo_tutorial_basics_allocator ............................................... Passed 1.86 sec +217: Return code was 0. +217: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout", "None". +217: Standard output was as expected. +217: Standard error was as expected. +84: test_parallel_atomic_cas OK +228: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_1_solution. +228: Return code was 0. +228: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_1_solution.cpp.stdout", "None". +228: Standard output was as expected. +228: Standard error was as expected. +233: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_base. +233: Return code was 0. +233: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/base.cpp.stdout", "None". +233: Standard output was as expected. +233: Standard error was as expected. +212: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +212: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +243: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +243: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +236: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution1. +236: Return code was 0. +236: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution1.cpp.stdout", "None". +236: Standard output was as expected. +236: Standard error was as expected. +219: Return code was 0. +219: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/solution2.cpp.stdout", "None". +219: Standard output was as expected. +219: Standard error was as expected. 234: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example1. 234: Return code was 0. 234: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example1.cpp.stdout", "None". 234: Standard output was as expected. 234: Standard error was as expected. -225/414 Test #234: test_demo_tutorial_gff_and_gtf_io_example1 ........................................ Passed 0.18 sec -226/414 Test #230: test_demo_tutorial_genome_annotations_assignment_3_solution ....................... Passed 0.21 sec -243: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -243: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -243: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment1. -243: Return code was 0. -243: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout", "None". -243: Standard output was as expected. -243: Standard error was as expected. -227/414 Test #243: test_demo_tutorial_index_iterators_index_assignment1 .............................. Passed 0.12 sec -228/414 Test #235: test_demo_tutorial_gff_and_gtf_io_example2 ........................................ Passed 0.17 sec -217: Return code was 0. -217: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/file_io_overview/example1.cpp.stdout", "None". -217: Standard output was as expected. -217: Standard error was as expected. -229/414 Test #217: test_demo_tutorial_file_io_overview_example1 ...................................... Passed 0.26 sec 238: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 238: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -238: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution3. -238: Return code was 0. -238: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp.stdout", "None". -238: Standard output was as expected. -238: Standard error was as expected. -230/414 Test #238: test_demo_tutorial_gff_and_gtf_io_solution3 ....................................... Passed 0.15 sec -84: test_parallel_atomic_max OK -84: test_parallel_splitter_equidistant OK -84: test_parallel_splitting_compute_splitters OK -84: test_parallel_sum OK -84: test_parallel_partial_sum OK -84: test_parallel_queue_simple OK -84: test_parallel_queue_resize OK -84: test_parallel_queue_non_pod OK -84: threads: 2 -84: writers: 1 -240: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -240: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -240: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_dijkstra. -240: Return code was 0. -240: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout", "None". -240: Standard output was as expected. -240: Standard error was as expected. -231/414 Test #240: test_demo_tutorial_graph_graph_dijkstra ........................................... Passed 0.14 sec -242: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -242: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -242: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_solution_1. -242: Return code was 0. -242: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout", "None". -242: Standard output was as expected. -242: Standard error was as expected. -239: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -239: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 239: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_algo_scc. 239: Return code was 0. 239: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_algo_scc.cpp.stdout", "None". -239: Standard output was as expected. -239: Standard error was as expected. -241: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -241: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -241: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_hmm. -241: Return code was 0. -241: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_hmm.cpp.stdout", "None". -241: Standard output was as expected. -241: Standard error was as expected. -232/414 Test #241: test_demo_tutorial_graph_graph_hmm ................................................ Passed 0.13 sec -66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +235: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_example2. +235: Return code was 0. +235: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/example2.cpp.stdout", "None". +216/414 Test #217: test_demo_tutorial_file_io_overview_example1 ...................................... Passed 0.39 sec +test 258 + Start 258: test_demo_tutorial_indices_assignment_2 + +258: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp.stdout" +258: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +258: Test timeout computed to be: 10000000 +217/414 Test #228: test_demo_tutorial_genome_annotations_assignment_1_solution ....................... Passed 0.29 sec +218/414 Test #233: test_demo_tutorial_gff_and_gtf_io_base ............................................ Passed 0.21 sec +219/414 Test #236: test_demo_tutorial_gff_and_gtf_io_solution1 ....................................... Passed 0.19 sec +220/414 Test #219: test_demo_tutorial_file_io_overview_solution2 ..................................... Passed 0.38 sec +251: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +251: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +249: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +249: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +248: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +248: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 245: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 245: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -245: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search. -245: Return code was 0. -245: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout", "None". -245: Standard output was as expected. -245: Standard error was as expected. -246: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -246: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -246: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_preorder. -246: Return code was 0. -246: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp.stdout", "None". -246: Standard output was as expected. -246: Standard error was as expected. 244: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 244: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -115: FileStreamTest_SeekLarge type parameter seqan::MMap >, unsigned long> > OK -115: VStreamTest_Construct type parameter seqan::Tag OK -115: VStreamTest_Construct type parameter seqan::Tag OK -115: VStreamTest_Construct type parameter seqan::Tag OK -115: VStreamTest_Construct type parameter seqan::Tag OK -247: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -247: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 259 Start 259: test_demo_tutorial_indices_base @@ -311032,30 +309439,93 @@ 262: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp.stdout" 262: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 262: Test timeout computed to be: 10000000 +239: Standard output was as expected. +239: Standard error was as expected. +221/414 Test #241: test_demo_tutorial_graph_graph_hmm ................................................ Passed 0.16 sec test 263 Start 263: test_demo_tutorial_iterators_assignment_3_workshop 263: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop.cpp.stdout" 263: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 263: Test timeout computed to be: 10000000 +235: Standard output was as expected. +235: Standard error was as expected. +249: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search2. +249: Return code was 0. +249: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.cpp.stdout", "None". +249: Standard output was as expected. +249: Standard error was as expected. +243: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment1. +243: Return code was 0. +243: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment1.cpp.stdout", "None". +243: Standard output was as expected. +243: Standard error was as expected. +251: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution1. +251: Return code was 0. +251: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp.stdout", "None". +251: Standard output was as expected. +251: Standard error was as expected. +240: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +240: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +71: IndexFinderTest_FindFirstChar type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +222/414 Test #234: test_demo_tutorial_gff_and_gtf_io_example1 ........................................ Passed 0.23 sec test 264 Start 264: test_demo_tutorial_iterators_assignment_3_workshop_solution 264: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp.stdout" 264: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 264: Test timeout computed to be: 10000000 +250: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +250: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +231: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_genome_annotations_assignment_4_solution. +244: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment2. +244: Return code was 0. +244: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp.stdout", "None". +254: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +254: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +242: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +242: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +252: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +252: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +223/414 Test #239: test_demo_tutorial_graph_graph_algo_scc ........................................... Passed 0.20 sec test 265 Start 265: test_demo_tutorial_iterators_assignment_4_workshop_solution 265: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_4_workshop_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_4_workshop_solution.cpp.stdout" 265: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 265: Test timeout computed to be: 10000000 +245: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_bidirectional_search. +244: Standard output was as expected. +244: Standard error was as expected. +248: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search. +224/414 Test #235: test_demo_tutorial_gff_and_gtf_io_example2 ........................................ Passed 0.24 sec +245: Return code was 0. +245: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_bidirectional_search.cpp.stdout", "None". test 266 Start 266: test_demo_tutorial_iterators_base 266: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp.stdout" 266: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 266: Test timeout computed to be: 10000000 +245: Standard output was as expected. +245: Standard error was as expected. +252: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution2. +255: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +255: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +256: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +256: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +231: Return code was 0. +231: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/genome_annotations/assignment_4_solution.cpp.stdout", "None". +231: Standard output was as expected. +231: Standard error was as expected. +258: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +258: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +248: Return code was 0. +248: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp.stdout", "None". +225/414 Test #243: test_demo_tutorial_index_iterators_index_assignment1 .............................. Passed 0.19 sec +226/414 Test #244: test_demo_tutorial_index_iterators_index_assignment2 .............................. Passed 0.18 sec +227/414 Test #249: test_demo_tutorial_index_iterators_index_search2 .................................. Passed 0.14 sec +228/414 Test #251: test_demo_tutorial_index_iterators_iterator_solution1 ............................. Passed 0.12 sec test 267 Start 267: test_demo_tutorial_iterators_sequence_iterator_demo @@ -311080,6 +309550,53 @@ 270: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_journal_string_basic" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp.stdout" 270: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 270: Test timeout computed to be: 10000000 +250: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_assignment2. +250: Return code was 0. +250: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp.stdout", "None". +250: Standard output was as expected. +250: Standard error was as expected. +118: test_translation_stringset_multiframe_concatdirect_parallel OK +118: ************************************** +118: Total Tests: 10 +118: Skipped: 0 +118: Errors: 0 +118: ************************************** +248: Standard output was as expected. +248: Standard error was as expected. +252: Return code was 0. +252: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp.stdout", "None". +252: Standard output was as expected. +252: Standard error was as expected. +247: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +247: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +246: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +246: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +258: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_2. +258: Return code was 0. +258: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp.stdout", "None". +258: Standard output was as expected. +258: Standard error was as expected. +255: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution1. +255: Return code was 0. +255: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stderr". +255: Standard output was as expected. +255: Standard error was as expected. +115: FileStreamTest_WriteLarge type parameter seqan::MMap >, unsigned long> > OK +238: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_gff_and_gtf_io_solution3. +257: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +257: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +253: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +253: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +229/414 Test #118: test_translation .................................................................. Passed 1.60 sec +230/414 Test #231: test_demo_tutorial_genome_annotations_assignment_4_solution ....................... Passed 0.32 sec +231/414 Test #245: test_demo_tutorial_index_iterators_index_bidirectional_search ..................... Passed 0.20 sec +232/414 Test #248: test_demo_tutorial_index_iterators_index_search ................................... Passed 0.18 sec +233/414 Test #250: test_demo_tutorial_index_iterators_iterator_assignment2 ........................... Passed 0.17 sec +234/414 Test #252: test_demo_tutorial_index_iterators_iterator_solution2 ............................. Passed 0.15 sec +238: Return code was 0. +238: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/gff_and_gtf_io/solution3.cpp.stdout", "None". +263: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +263: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 271 Start 271: test_demo_tutorial_journaled_set_example_online_search @@ -311092,29 +309609,6 @@ 272: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout" 272: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 272: Test timeout computed to be: 10000000 -248: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -248: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -248: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search. -248: Return code was 0. -248: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search.cpp.stdout", "None". -248: Standard output was as expected. -248: Standard error was as expected. -249: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -249: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -249: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_search2. -249: Return code was 0. -249: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_search2.cpp.stdout", "None". -249: Standard output was as expected. -249: Standard error was as expected. -251: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -251: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -251: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution1. -251: Return code was 0. -251: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution1.cpp.stdout", "None". -251: Standard output was as expected. -251: Standard error was as expected. -233/414 Test #239: test_demo_tutorial_graph_graph_algo_scc ........................................... Passed 0.22 sec -234/414 Test #242: test_demo_tutorial_graph_solution_1 ............................................... Passed 0.19 sec test 273 Start 273: test_demo_tutorial_journaled_set_solution_online_search_assignment1 @@ -311127,144 +309621,6 @@ 274: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp.stdout" 274: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 274: Test timeout computed to be: 10000000 -235/414 Test #248: test_demo_tutorial_index_iterators_index_search ................................... Passed 0.16 sec -236/414 Test #249: test_demo_tutorial_index_iterators_index_search2 .................................. Passed 0.15 sec -237/414 Test #251: test_demo_tutorial_index_iterators_iterator_solution1 ............................. Passed 0.14 sec -247: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_property_maps. -247: Return code was 0. -247: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_property_maps.cpp.stdout", "None". -247: Standard output was as expected. -247: Standard error was as expected. -238/414 Test #247: test_demo_tutorial_index_iterators_index_property_maps ............................ Passed 0.17 sec -250: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -250: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -250: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_assignment2. -250: Return code was 0. -250: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_assignment2.cpp.stdout", "None". -250: Standard output was as expected. -250: Standard error was as expected. -239/414 Test #250: test_demo_tutorial_index_iterators_iterator_assignment2 ........................... Passed 0.14 sec -244: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_assignment2. -244: Return code was 0. -244: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_assignment2.cpp.stdout", "None". -244: Standard output was as expected. -244: Standard error was as expected. -240/414 Test #244: test_demo_tutorial_index_iterators_index_assignment2 .............................. Passed 0.19 sec -241/414 Test #245: test_demo_tutorial_index_iterators_index_bidirectional_search ..................... Passed 0.20 sec -253: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -253: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -253: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution3. -253: Return code was 0. -253: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution3.cpp.stdout", "None". -253: Standard output was as expected. -253: Standard error was as expected. -242/414 Test #253: test_demo_tutorial_index_iterators_iterator_solution3 ............................. Passed 0.13 sec -254: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -254: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -254: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_base. -254: Return code was 0. -254: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/base.cpp.stdout", "None". -254: Standard output was as expected. -254: Standard error was as expected. -243/414 Test #254: test_demo_tutorial_indexed_fasta_io_base .......................................... Passed 0.13 sec -252: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -252: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -252: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution2. -252: Return code was 0. -252: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution2.cpp.stdout", "None". -252: Standard output was as expected. -252: Standard error was as expected. -244/414 Test #252: test_demo_tutorial_index_iterators_iterator_solution2 ............................. Passed 0.14 sec -257: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -257: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -257: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_1. -257: Return code was 0. -257: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.cpp.stdout", "None". -257: Standard output was as expected. -257: Standard error was as expected. -245/414 Test #257: test_demo_tutorial_indices_assignment_1 ........................................... Passed 0.10 sec -246/414 Test #246: test_demo_tutorial_index_iterators_index_preorder ................................. Passed 0.19 sec -256: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -256: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -256: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution2. -256: Return code was 0. -256: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stderr". -256: Standard output was as expected. -256: Standard error was as expected. -247/414 Test #256: test_demo_tutorial_indexed_fasta_io_solution2 ..................................... Passed 0.12 sec -258: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -258: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -258: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_2. -258: Return code was 0. -258: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_2.cpp.stdout", "None". -258: Standard output was as expected. -258: Standard error was as expected. -248/414 Test #258: test_demo_tutorial_indices_assignment_2 ........................................... Passed 0.10 sec -115: VStreamTest_OpenClose type parameter seqan::Tag OK -115: VStreamTest_OpenClose type parameter seqan::Tag OK -115: VStreamTest_OpenClose type parameter seqan::Tag OK -115: VStreamTest_OpenClose type parameter seqan::Tag OK -115: VStreamTest_Decompression type parameter seqan::Tag OK -115: VStreamTest_Decompression type parameter seqan::Tag OK -115: VStreamTest_Decompression type parameter seqan::Tag OK -115: VStreamTest_Decompression type parameter seqan::Tag OK -115: VStreamTest_Compression type parameter seqan::Tag OK -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -255: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -255: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -255: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution1. -255: Return code was 0. -255: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution1.cpp.stderr". -255: Standard output was as expected. -255: Standard error was as expected. -86: test_pipe_test_sorter OK -86: test_pipe_sampler OK -86: test_pipe_tupler OK -86: test_pipe_tupler_multi OK -86: ************************************** -86: Total Tests: 8 -86: Skipped: 0 -86: Errors: 0 -86: ************************************** -249/414 Test #86: test_test_pipe .................................................................... Passed 2.81 sec -84: stop reader #1 100000 -84: throughput: 1720412 values/s -84: cap: 30 -84: test_parallel_queue_spsc_fixedsize OK -84: threads: 2 -84: writers: 1 -84: stop reader #1 100000 -84: throughput: 8055816 values/s -84: cap: 76331 -84: test_parallel_queue_spsc_dynamicsize OK -84: threads: 4 -84: writers: 1 -259: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -259: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -260: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -260: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -260: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1. -260: Return code was 0. -260: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.cpp.stdout", "None". -260: Standard output was as expected. -260: Standard error was as expected. -261: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -261: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -261: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1_solution. -261: Return code was 0. -261: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout", "None". -261: Standard output was as expected. -261: Standard error was as expected. -262: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -262: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -262: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_2_solution. -262: Return code was 0. -262: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp.stdout", "None". -262: Standard output was as expected. -262: Standard error was as expected. -263: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -263: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -263: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop. test 275 Start 275: test_demo_tutorial_journaled_set_solution_online_search_assignment3 @@ -311277,6 +309633,57 @@ 276: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout" 276: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 276: Test timeout computed to be: 10000000 +238: Standard output was as expected. +238: Standard error was as expected. +263: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop. +263: Return code was 0. +263: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop.cpp.stdout", "None". +263: Standard output was as expected. +263: Standard error was as expected. +261: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +261: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +261: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1_solution. +261: Return code was 0. +261: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1_solution.cpp.stdout", "None". +261: Standard output was as expected. +261: Standard error was as expected. +256: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_solution2. +256: Return code was 0. +256: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stdout", "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/solution2.cpp.stderr". +256: Standard output was as expected. +256: Standard error was as expected. +204: Return code was 0. +204: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/basics/allocator.cpp.stdout", "None". +204: Standard output was as expected. +204: Standard error was as expected. +260: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +260: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +254: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indexed_fasta_io_base. +240: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_graph_dijkstra. +247: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_property_maps. +247: Return code was 0. +247: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_property_maps.cpp.stdout", "None". +247: Standard output was as expected. +247: Standard error was as expected. +262: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +262: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +267: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +267: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +259: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +259: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +268: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +268: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +212: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_bed_io_solution3. +253: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_iterator_solution3. +266: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +266: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +235/414 Test #204: test_demo_tutorial_basics_allocator ............................................... Passed 0.65 sec +236/414 Test #255: test_demo_tutorial_indexed_fasta_io_solution1 ..................................... Passed 0.18 sec +237/414 Test #256: test_demo_tutorial_indexed_fasta_io_solution2 ..................................... Passed 0.17 sec +238/414 Test #258: test_demo_tutorial_indices_assignment_2 ........................................... Passed 0.16 sec +239/414 Test #238: test_demo_tutorial_gff_and_gtf_io_solution3 ....................................... Passed 0.32 sec +260: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_1. +242: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_graph_solution_1. test 277 Start 277: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base @@ -311301,12 +309708,74 @@ 280: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/base.cpp.stdout" 280: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 280: Test timeout computed to be: 10000000 +260: Return code was 0. +260: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_1.cpp.stdout", "None". +260: Standard output was as expected. +260: Standard error was as expected. +240/414 Test #260: test_demo_tutorial_iterators_assignment_1 ......................................... Passed 0.18 sec +242: Return code was 0. +242: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/solution_1.cpp.stdout", "None". +242: Standard output was as expected. +242: Standard error was as expected. test 281 Start 281: test_demo_tutorial_modifiers_UNUSED_modcomplementdna 281: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_UNUSED_modcomplementdna" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/UNUSED_modcomplementdna.cpp.stdout" 281: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 281: Test timeout computed to be: 10000000 +257: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_assignment_1. +257: Return code was 0. +257: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/assignment_1.cpp.stdout", "None". +257: Standard output was as expected. +257: Standard error was as expected. +253: Return code was 0. +253: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/iterator_solution3.cpp.stdout", "None". +253: Standard output was as expected. +253: Standard error was as expected. +241/414 Test #253: test_demo_tutorial_index_iterators_iterator_solution3 ............................. Passed 0.24 sec +212: Return code was 0. +212: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/bed_io/solution3.cpp.stdout", "None". +212: Standard output was as expected. +212: Standard error was as expected. +242/414 Test #212: test_demo_tutorial_bed_io_solution3 ............................................... Passed 0.63 sec +246: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_index_iterators_index_preorder. +246: Return code was 0. +246: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/index_iterators/index_preorder.cpp.stdout", "None". +246: Standard output was as expected. +246: Standard error was as expected. +267: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_sequence_iterator_demo. +267: Return code was 0. +267: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.cpp.stdout", "None". +267: Standard output was as expected. +267: Standard error was as expected. +243/414 Test #263: test_demo_tutorial_iterators_assignment_3_workshop ................................ Passed 0.17 sec +254: Return code was 0. +254: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indexed_fasta_io/base.cpp.stdout", "None". +254: Standard output was as expected. +254: Standard error was as expected. +244/414 Test #247: test_demo_tutorial_index_iterators_index_property_maps ............................ Passed 0.29 sec +264: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +264: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +66: IndexTest_ClearEmpty type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +240: Return code was 0. +240: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/graph/graph_dijkstra.cpp.stdout", "None". +240: Standard output was as expected. +240: Standard error was as expected. +270: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +270: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +245/414 Test #261: test_demo_tutorial_iterators_assignment_1_solution ................................ Passed 0.19 sec +271: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +271: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +273: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +273: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +262: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_2_solution. +262: Return code was 0. +262: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_2_solution.cpp.stdout", "None". +268: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_base. +268: Return code was 0. +268: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp.stdout", "None". +268: Standard output was as expected. +268: Standard error was as expected. test 282 Start 282: test_demo_tutorial_modifiers_assignment1 @@ -311343,146 +309812,74 @@ 287: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp.stdout" 287: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 287: Test timeout computed to be: 10000000 -test 288 - Start 288: test_demo_tutorial_multiple_sequence_alignment_consensus - -288: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp.stdout" -288: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -288: Test timeout computed to be: 10000000 -test 289 - Start 289: test_demo_tutorial_multiple_sequence_alignment_msa - -289: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_msa" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout" -289: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -289: Test timeout computed to be: 10000000 -250/414 Test #255: test_demo_tutorial_indexed_fasta_io_solution1 ..................................... Passed 0.19 sec -251/414 Test #260: test_demo_tutorial_iterators_assignment_1 ......................................... Passed 0.15 sec -265: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -265: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -265: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_4_workshop_solution. -265: Return code was 0. -265: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_4_workshop_solution.cpp.stdout", "None". -265: Standard output was as expected. -265: Standard error was as expected. -266: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -266: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -266: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_base. -266: Return code was 0. -266: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp.stdout", "None". -266: Standard output was as expected. -266: Standard error was as expected. -264: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -264: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -264: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop_solution. -264: Return code was 0. -264: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp.stdout", "None". -264: Standard output was as expected. -264: Standard error was as expected. -267: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -267: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -267: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_sequence_iterator_demo. -267: Return code was 0. -267: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/sequence_iterator_demo.cpp.stdout", "None". -267: Standard output was as expected. -267: Standard error was as expected. 269: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 269: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 269: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_join. 269: Return code was 0. 269: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_join.cpp.stdout", "None". +266: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_base. +266: Return code was 0. +266: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/base.cpp.stdout", "None". +266: Standard output was as expected. +266: Standard error was as expected. +246/414 Test #257: test_demo_tutorial_indices_assignment_1 ........................................... Passed 0.26 sec +test 288 + Start 288: test_demo_tutorial_multiple_sequence_alignment_consensus + +288: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp.stdout" +288: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +288: Test timeout computed to be: 10000000 269: Standard output was as expected. 269: Standard error was as expected. -test 290 - Start 290: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded - -290: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout" -290: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -290: Test timeout computed to be: 10000000 -test 291 - Start 291: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 - -291: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.stdout" -291: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -291: Test timeout computed to be: 10000000 +247/414 Test #266: test_demo_tutorial_iterators_base ................................................. Passed 0.20 sec 259: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_indices_base. 259: Return code was 0. 259: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/indices/base.cpp.stdout", "None". 259: Standard output was as expected. 259: Standard error was as expected. -263: Return code was 0. -263: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop.cpp.stdout", "None". -263: Standard output was as expected. -263: Standard error was as expected. -115: VStreamTest_Compression type parameter seqan::Tag OK -270: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -270: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +275: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +275: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +275: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment3. 270: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_journal_string_basic. 270: Return code was 0. 270: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_journal_string_basic.cpp.stdout", "None". 270: Standard output was as expected. 270: Standard error was as expected. -274: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -274: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -274: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment2. -272: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -272: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -272: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint. -272: Return code was 0. -272: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout", "None". -272: Standard output was as expected. -272: Standard error was as expected. -268: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -268: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -268: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_base. -268: Return code was 0. -268: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/base.cpp.stdout", "None". -268: Standard output was as expected. -268: Standard error was as expected. -273: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -273: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -273: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment1. -271: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -271: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +248/414 Test #270: test_demo_tutorial_journaled_set_example_journal_string_basic ..................... Passed 0.17 sec +262: Standard output was as expected. +262: Standard error was as expected. +265: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +265: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +249/414 Test #246: test_demo_tutorial_index_iterators_index_preorder ................................. Passed 0.35 sec +250/414 Test #254: test_demo_tutorial_indexed_fasta_io_base .......................................... Passed 0.29 sec +251/414 Test #240: test_demo_tutorial_graph_graph_dijkstra ........................................... Passed 0.40 sec +252/414 Test #268: test_demo_tutorial_journaled_set_base ............................................. Passed 0.19 sec +253/414 Test #242: test_demo_tutorial_graph_solution_1 ............................................... Passed 0.39 sec 271: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search. -84: stop reader #1 45916 -84: stop reader #2 13591 -84: stop reader #3 40493 -84: throughput: 999240 values/s -84: cap: 30 -84: test_parallel_queue_spmc_fixedsize OK -84: threads: 4 -84: writers: 1 -275: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -275: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -275: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment3. +273: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment1. 276: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 276: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -276: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4. +254/414 Test #267: test_demo_tutorial_iterators_sequence_iterator_demo ............................... Passed 0.19 sec 277: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 277: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -277: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base. -279: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -279: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -280: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -280: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -281: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -281: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -281: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_UNUSED_modcomplementdna. -281: Return code was 0. -281: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/UNUSED_modcomplementdna.cpp.stdout", "None". -281: Standard output was as expected. -281: Standard error was as expected. -252/414 Test #259: test_demo_tutorial_indices_base ................................................... Passed 0.19 sec -253/414 Test #261: test_demo_tutorial_iterators_assignment_1_solution ................................ Passed 0.17 sec -254/414 Test #262: test_demo_tutorial_iterators_assignment_2_solution ................................ Passed 0.16 sec -255/414 Test #263: test_demo_tutorial_iterators_assignment_3_workshop ................................ Passed 0.16 sec -256/414 Test #264: test_demo_tutorial_iterators_assignment_3_workshop_solution ....................... Passed 0.16 sec -257/414 Test #265: test_demo_tutorial_iterators_assignment_4_workshop_solution ....................... Passed 0.15 sec -258/414 Test #266: test_demo_tutorial_iterators_base ................................................. Passed 0.15 sec -259/414 Test #267: test_demo_tutorial_iterators_sequence_iterator_demo ............................... Passed 0.15 sec -260/414 Test #268: test_demo_tutorial_journaled_set_base ............................................. Passed 0.14 sec -261/414 Test #269: test_demo_tutorial_journaled_set_example_join ..................................... Passed 0.14 sec -262/414 Test #270: test_demo_tutorial_journaled_set_example_journal_string_basic ..................... Passed 0.13 sec +test 289 + Start 289: test_demo_tutorial_multiple_sequence_alignment_msa + +289: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_msa" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout" +289: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +289: Test timeout computed to be: 10000000 +test 290 + Start 290: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded + +290: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout" +290: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +290: Test timeout computed to be: 10000000 +test 291 + Start 291: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 + +291: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.stdout" +291: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +291: Test timeout computed to be: 10000000 test 292 Start 292: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 @@ -311513,6 +309910,47 @@ 296: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.stdout" 296: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 296: Test timeout computed to be: 10000000 +280: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +280: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +280: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_base. +280: Return code was 0. +280: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/base.cpp.stdout", "None". +280: Standard output was as expected. +280: Standard error was as expected. +279: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +279: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +279: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_assignment1_solution. +264: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_3_workshop_solution. +264: Return code was 0. +264: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_3_workshop_solution.cpp.stdout", "None". +264: Standard output was as expected. +264: Standard error was as expected. +272: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +272: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +286: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +286: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +285: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +285: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +274: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +274: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +276: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment4. +68: BidirectionalFMIndexTest_SearchInString type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +265: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_iterators_assignment_4_workshop_solution. +265: Return code was 0. +265: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/iterators/assignment_4_workshop_solution.cpp.stdout", "None". +265: Standard output was as expected. +265: Standard error was as expected. +283: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +283: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +282: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +282: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +277: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base. +255/414 Test #259: test_demo_tutorial_indices_base ................................................... Passed 0.31 sec +256/414 Test #262: test_demo_tutorial_iterators_assignment_2_solution ................................ Passed 0.30 sec +257/414 Test #269: test_demo_tutorial_journaled_set_example_join ..................................... Passed 0.24 sec +278: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +278: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +258/414 Test #280: test_demo_tutorial_metafunctions_base ............................................. Passed 0.13 sec test 297 Start 297: test_demo_tutorial_pairwise_sequence_alignment_alignment_local @@ -311537,6 +309975,27 @@ 300: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.stdout" 300: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 300: Test timeout computed to be: 10000000 +279: Return code was 0. +279: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.cpp.stdout", "None". +279: Standard output was as expected. +279: Standard error was as expected. +287: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +287: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +283: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1_solution. +283: Return code was 0. +283: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp.stdout", "None". +283: Standard output was as expected. +283: Standard error was as expected. +286: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_nested. +286: Return code was 0. +286: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp.stdout", "None". +286: Standard output was as expected. +286: Standard error was as expected. +84: test_parallel_atomic_min OK +291: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +291: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +259/414 Test #264: test_demo_tutorial_iterators_assignment_3_workshop_solution ....................... Passed 0.33 sec +260/414 Test #286: test_demo_tutorial_modifiers_nested ............................................... Passed 0.13 sec test 301 Start 301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 @@ -311549,115 +310008,69 @@ 302: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.stdout" 302: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 302: Test timeout computed to be: 10000000 -263/414 Test #272: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint ........... Passed 0.18 sec -277: Return code was 0. -277: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.stdout", "None". -277: Standard output was as expected. -277: Standard error was as expected. -280: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_base. -280: Return code was 0. -280: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/base.cpp.stdout", "None". -280: Standard output was as expected. -280: Standard error was as expected. -278: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -278: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -278: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1. -278: Return code was 0. -278: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.stdout", "None". -278: Standard output was as expected. -278: Standard error was as expected. -283: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -283: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -283: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1_solution. -283: Return code was 0. -283: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1_solution.cpp.stdout", "None". -283: Standard output was as expected. -283: Standard error was as expected. -284: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -284: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -284: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modreverse. -284: Return code was 0. -284: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp.stdout", "None". -284: Standard output was as expected. -284: Standard error was as expected. -282: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -282: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -282: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1. -282: Return code was 0. -282: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp.stdout", "None". -282: Standard output was as expected. -282: Standard error was as expected. -67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK -285: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -285: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 285: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modview. 285: Return code was 0. 285: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modview.cpp.stdout", "None". 285: Standard output was as expected. 285: Standard error was as expected. +281: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +281: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +287: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_assignment1. +299: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +299: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +272: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_example_online_search_assignment1_hint. +288: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +288: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +293: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +293: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +291: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1. +261/414 Test #265: test_demo_tutorial_iterators_assignment_4_workshop_solution ....................... Passed 0.35 sec +262/414 Test #283: test_demo_tutorial_modifiers_assignment1_solution ................................. Passed 0.17 sec test 303 Start 303: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 303: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.stdout" 303: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 303: Test timeout computed to be: 10000000 -287: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -287: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -287: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_assignment1. -287: Return code was 0. -287: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp.stdout", "None". -287: Standard output was as expected. -287: Standard error was as expected. -279: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_metafunctions_assignment1_solution. -279: Return code was 0. -279: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/metafunctions/assignment1_solution.cpp.stdout", "None". -279: Standard output was as expected. -279: Standard error was as expected. -289: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -289: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -289: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_msa. -289: Return code was 0. -289: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout", "None". -289: Standard output was as expected. -289: Standard error was as expected. -288: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -288: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -288: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus. -291: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -291: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -291: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1. -291: Return code was 0. -291: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.stdout", "None". -291: Standard output was as expected. -291: Standard error was as expected. -286: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -286: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -84: stop reader #3 82537 -84: stop reader #1 10623 -84: stop reader #2 6840 -84: throughput: 1548511 values/s -84: cap: 15075 -84: test_parallel_queue_spmc_dynamicsize OK -84: threads: 3 -84: writers: 2 -290: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -290: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -264/414 Test #277: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base ............... Passed 0.15 sec -265/414 Test #279: test_demo_tutorial_metafunctions_assignment1_solution ............................. Passed 0.14 sec -266/414 Test #280: test_demo_tutorial_metafunctions_base ............................................. Passed 0.14 sec -267/414 Test #281: test_demo_tutorial_modifiers_UNUSED_modcomplementdna .............................. Passed 0.13 sec -268/414 Test #282: test_demo_tutorial_modifiers_assignment1 .......................................... Passed 0.13 sec -269/414 Test #283: test_demo_tutorial_modifiers_assignment1_solution ................................. Passed 0.12 sec -270/414 Test #284: test_demo_tutorial_modifiers_modreverse ........................................... Passed 0.12 sec -271/414 Test #285: test_demo_tutorial_modifiers_modview .............................................. Passed 0.11 sec test 304 Start 304: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 304: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.stdout" 304: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 304: Test timeout computed to be: 10000000 +277: Return code was 0. +277: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base.cpp.stdout", "None". +277: Standard output was as expected. +277: Standard error was as expected. +291: Return code was 0. +291: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment1.cpp.stdout", "None". +291: Standard output was as expected. +291: Standard error was as expected. +272: Return code was 0. +272: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search_assignment1_hint.cpp.stdout", "None". +272: Standard output was as expected. +272: Standard error was as expected. +298: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +298: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +284: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +284: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +282: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_assignment1. +278: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1. +300: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +300: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +271: Return code was 0. +271: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.cpp.stdout", "None". +287: Return code was 0. +287: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/assignment1.cpp.stdout", "None". +287: Standard output was as expected. +287: Standard error was as expected. +271: Standard output was as expected. +271: Standard error was as expected. +106: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +299: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5. +263/414 Test #272: test_demo_tutorial_journaled_set_example_online_search_assignment1_hint ........... Passed 0.31 sec +264/414 Test #277: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base ............... Passed 0.27 sec +265/414 Test #285: test_demo_tutorial_modifiers_modview .............................................. Passed 0.20 sec test 305 Start 305: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 @@ -311676,6 +310089,31 @@ 307: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp.stdout" 307: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 307: Test timeout computed to be: 10000000 +299: Return code was 0. +299: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout", "None". +299: Standard output was as expected. +299: Standard error was as expected. +298: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1. +298: Return code was 0. +298: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.stdout", "None". +298: Standard output was as expected. +298: Standard error was as expected. +282: Return code was 0. +282: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/assignment1.cpp.stdout", "None". +282: Standard output was as expected. +282: Standard error was as expected. +290: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +290: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +274: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_journaled_set_solution_online_search_assignment2. +115: FileStreamTest_SeekLarge type parameter seqan::Async OK +288: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_consensus. +266/414 Test #271: test_demo_tutorial_journaled_set_example_online_search ............................ Passed 0.34 sec +267/414 Test #279: test_demo_tutorial_metafunctions_assignment1_solution ............................. Passed 0.27 sec +268/414 Test #287: test_demo_tutorial_multiple_sequence_alignment_assignment1 ........................ Passed 0.21 sec +269/414 Test #299: test_demo_tutorial_pairwise_sequence_alignment_assignment5 ........................ Passed 0.11 sec +293: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3. +301: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +301: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") test 308 Start 308: test_demo_tutorial_pattern_matching_assignment1_solution @@ -311700,90 +310138,40 @@ 311: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp.stdout" 311: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 311: Test timeout computed to be: 10000000 -272/414 Test #289: test_demo_tutorial_multiple_sequence_alignment_msa ................................ Passed 0.13 sec -294: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -294: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -test 312 - Start 312: test_demo_tutorial_pattern_matching_assignment3_solution - -312: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp.stdout" -312: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -312: Test timeout computed to be: 10000000 -294: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap. -293: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -293: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -293: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3. 293: Return code was 0. 293: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment3.cpp.stdout", "None". 293: Standard output was as expected. 293: Standard error was as expected. -295: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -295: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -290: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded. -290: Return code was 0. -290: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout", "None". -290: Standard output was as expected. -290: Standard error was as expected. -298: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -298: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -298: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1. -298: Return code was 0. -298: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local_assignment1.cpp.stdout", "None". -298: Standard output was as expected. -298: Standard error was as expected. -286: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_nested. -286: Return code was 0. -286: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/nested.cpp.stdout", "None". -286: Standard output was as expected. -286: Standard error was as expected. -84: stop reader #2 100000 -84: throughput: 3258026 values/s -84: cap: 30 -84: test_parallel_queue_mpsc_fixedsize OK -84: test_parallel_thread_pool_construct OK -84: test_parallel_thread_pool_spawn OK -273: Return code was 0. -273: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout", "None". -273: Standard output was as expected. -273: Standard error was as expected. -296: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -296: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +302: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +302: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 297: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 297: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -292: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -292: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -300: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -300: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +295: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +295: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +281: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_UNUSED_modcomplementdna. +281: Return code was 0. +281: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/UNUSED_modcomplementdna.cpp.stdout", "None". +281: Standard output was as expected. +281: Standard error was as expected. +304: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +304: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 300: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step1. 300: Return code was 0. 300: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step1.cpp.stdout", "None". 300: Standard output was as expected. 300: Standard error was as expected. -275: Return code was 0. -275: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout", "None". -275: Standard output was as expected. -275: Standard error was as expected. -301: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -301: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -302: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -302: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -276: Return code was 0. -276: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout", "None". -276: Standard output was as expected. -276: Standard error was as expected. -271: Return code was 0. -271: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/example_online_search.cpp.stdout", "None". -271: Standard output was as expected. -271: Standard error was as expected. -305: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -305: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -273/414 Test #273: test_demo_tutorial_journaled_set_solution_online_search_assignment1 ............... Passed 0.23 sec -274/414 Test #275: test_demo_tutorial_journaled_set_solution_online_search_assignment3 ............... Passed 0.21 sec -275/414 Test #278: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 ... Passed 0.19 sec -276/414 Test #286: test_demo_tutorial_modifiers_nested ............................................... Passed 0.15 sec -277/414 Test #287: test_demo_tutorial_multiple_sequence_alignment_assignment1 ........................ Passed 0.15 sec -278/414 Test #290: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded ................... Passed 0.13 sec -279/414 Test #291: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 ....... Passed 0.13 sec +289: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +289: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +270/414 Test #282: test_demo_tutorial_modifiers_assignment1 .......................................... Passed 0.28 sec +271/414 Test #291: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment1 ....... Passed 0.21 sec +272/414 Test #293: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 ....... Passed 0.19 sec +273/414 Test #298: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 ........ Passed 0.15 sec +test 312 + Start 312: test_demo_tutorial_pattern_matching_assignment3_solution + +312: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp.stdout" +312: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +312: Test timeout computed to be: 10000000 test 313 Start 313: test_demo_tutorial_pattern_matching_find_approx @@ -311802,6 +310190,29 @@ 315: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp.stdout" 315: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 315: Test timeout computed to be: 10000000 +278: Return code was 0. +278: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_string_tree/journaled_string_tree_base_assignment1.cpp.stdout", "None". +278: Standard output was as expected. +278: Standard error was as expected. +275: Return code was 0. +275: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment3.cpp.stdout", "None". +275: Standard output was as expected. +275: Standard error was as expected. +273: Return code was 0. +273: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment1.cpp.stdout", "None". +273: Standard output was as expected. +273: Standard error was as expected. +304: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5. +304: Return code was 0. +304: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.stdout", "None". +304: Standard output was as expected. +304: Standard error was as expected. +292: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +292: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +301: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step2. +302: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3. +274/414 Test #281: test_demo_tutorial_modifiers_UNUSED_modcomplementdna .............................. Passed 0.31 sec +275/414 Test #300: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 .................. Passed 0.16 sec test 316 Start 316: test_demo_tutorial_pattern_matching_find_index_multiple @@ -311814,43 +310225,43 @@ 317: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp.stdout" 317: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 317: Test timeout computed to be: 10000000 +294: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +294: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +301: Return code was 0. +301: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.stdout", "None". +301: Standard output was as expected. +301: Standard error was as expected. +302: Return code was 0. +302: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.stdout", "None". +302: Standard output was as expected. +302: Standard error was as expected. +284: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_modifiers_modreverse. +306: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +306: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +307: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +307: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +297: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local. +276/414 Test #278: test_demo_tutorial_journaled_string_tree_journaled_string_tree_base_assignment1 ... Passed 0.34 sec test 318 Start 318: test_demo_tutorial_q_gram_index_index_assignment6 318: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.cpp.stdout" 318: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 318: Test timeout computed to be: 10000000 +284: Return code was 0. +284: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/modifiers/modreverse.cpp.stdout", "None". +284: Standard output was as expected. +284: Standard error was as expected. +277/414 Test #273: test_demo_tutorial_journaled_set_solution_online_search_assignment1 ............... Passed 0.40 sec +278/414 Test #275: test_demo_tutorial_journaled_set_solution_online_search_assignment3 ............... Passed 0.38 sec +279/414 Test #302: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 .................. Passed 0.15 sec +280/414 Test #304: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 .................. Passed 0.13 sec test 319 Start 319: test_demo_tutorial_q_gram_index_index_qgram 319: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp.stdout" 319: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 319: Test timeout computed to be: 10000000 -294: Return code was 0. -294: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.stdout", "None". -294: Standard output was as expected. -294: Standard error was as expected. -295: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised. -295: Return code was 0. -295: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.stdout", "None". -295: Standard output was as expected. -295: Standard error was as expected. -280/414 Test #276: test_demo_tutorial_journaled_set_solution_online_search_assignment4 ............... Passed 0.24 sec -281/414 Test #271: test_demo_tutorial_journaled_set_example_online_search ............................ Passed 0.28 sec -304: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -304: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -304: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step5. -304: Return code was 0. -304: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step5.cpp.stdout", "None". -304: Standard output was as expected. -304: Standard error was as expected. -299: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -299: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -299: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5. -299: Return code was 0. -299: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5.cpp.stdout", "None". -299: Standard output was as expected. -299: Standard error was as expected. test 320 Start 320: test_demo_tutorial_q_gram_index_index_qgram_hash @@ -311863,100 +310274,62 @@ 321: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp.stdout" 321: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 321: Test timeout computed to be: 10000000 -282/414 Test #294: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap ........... Passed 0.14 sec -283/414 Test #295: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised ....... Passed 0.13 sec -69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -69: ************************************** -69: Total Tests: 14 -69: Skipped: 0 -69: Errors: 0 -69: ************************************** -284/414 Test #69: test_test_index_vstree ............................................................ Passed 3.17 sec -301: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step2. -301: Return code was 0. -301: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step2.cpp.stdout", "None". -301: Standard output was as expected. -301: Standard error was as expected. -285/414 Test #301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 .................. Passed 0.11 sec -286/414 Test #293: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment3 ....... Passed 0.14 sec -287/414 Test #298: test_demo_tutorial_pairwise_sequence_alignment_alignment_local_assignment1 ........ Passed 0.13 sec -297: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_local. +test 322 + Start 322: test_demo_tutorial_realignment_step2 + +322: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp.stdout" +322: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +322: Test timeout computed to be: 10000000 297: Return code was 0. 297: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_local.cpp.stdout", "None". 297: Standard output was as expected. 297: Standard error was as expected. -288/414 Test #297: test_demo_tutorial_pairwise_sequence_alignment_alignment_local .................... Passed 0.13 sec -289/414 Test #300: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step1 .................. Passed 0.12 sec -296: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard. -296: Return code was 0. -296: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.stdout", "None". -296: Standard output was as expected. -296: Standard error was as expected. -290/414 Test #296: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard .......... Passed 0.13 sec -66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK -66: IndexTest_OpenSave type parameter seqan::Index >, seqan::FMIndex > > OK -305: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step6. -305: Return code was 0. -305: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout", "None". -305: Standard output was as expected. -305: Standard error was as expected. -291/414 Test #305: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 .................. Passed 0.09 sec +295: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised. +295: Return code was 0. +295: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_specialised.cpp.stdout", "None". +295: Standard output was as expected. +295: Standard error was as expected. +308: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +308: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 303: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 303: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -303: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step4. -303: Return code was 0. -303: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.stdout", "None". -303: Standard output was as expected. -303: Standard error was as expected. -288: Return code was 0. -288: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp.stdout", "None". -288: Standard output was as expected. -288: Standard error was as expected. -292/414 Test #288: test_demo_tutorial_multiple_sequence_alignment_consensus .......................... Passed 0.19 sec -292: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2. -292: Return code was 0. -292: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.stdout", "None". -292: Standard output was as expected. -292: Standard error was as expected. -293/414 Test #292: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 ....... Passed 0.16 sec -306: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -306: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +310: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +310: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +310: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2_solution. +310: Return code was 0. +310: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp.stdout", "None". +310: Standard output was as expected. +310: Standard error was as expected. 306: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_parsing_command_line_arguments_base. 306: Return code was 0. 306: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/parsing_command_line_arguments/base.cpp.stdout", "None". 306: Standard output was as expected. 306: Standard error was as expected. -302: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step3. -302: Return code was 0. -302: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step3.cpp.stdout", "None". -302: Standard output was as expected. -302: Standard error was as expected. -294/414 Test #302: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step3 .................. Passed 0.11 sec -310: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -310: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -311: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -311: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 309: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 309: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -309: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2. +307: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1. +307: Return code was 0. +307: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp.stdout", "None". +307: Standard output was as expected. +307: Standard error was as expected. 312: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 312: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -274: Return code was 0. -274: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp.stdout", "None". -274: Standard output was as expected. -274: Standard error was as expected. -307: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -307: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -test 322 - Start 322: test_demo_tutorial_realignment_step2 - -322: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp.stdout" -322: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -322: Test timeout computed to be: 10000000 +289: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_multiple_sequence_alignment_msa. +316: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +316: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +313: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +313: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +305: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +305: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +318: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +318: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +319: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +319: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +281/414 Test #284: test_demo_tutorial_modifiers_modreverse ........................................... Passed 0.36 sec +282/414 Test #295: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_specialised ....... Passed 0.28 sec +283/414 Test #297: test_demo_tutorial_pairwise_sequence_alignment_alignment_local .................... Passed 0.26 sec +284/414 Test #301: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step2 .................. Passed 0.22 sec +285/414 Test #306: test_demo_tutorial_parsing_command_line_arguments_base ............................ Passed 0.15 sec test 323 Start 323: test_demo_tutorial_sam_and_bam_io_base @@ -311987,6 +310360,60 @@ 327: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp.stdout" 327: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 327: Test timeout computed to be: 10000000 +292: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2. +292: Return code was 0. +292: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_assignment2.cpp.stdout", "None". +292: Standard output was as expected. +292: Standard error was as expected. +315: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +315: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +315: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index. +315: Return code was 0. +315: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp.stdout", "None". +315: Standard output was as expected. +315: Standard error was as expected. +294: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap. +294: Return code was 0. +294: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_overlap.cpp.stdout", "None". +294: Standard output was as expected. +294: Standard error was as expected. +288: Return code was 0. +288: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/consensus.cpp.stdout", "None". +288: Standard output was as expected. +288: Standard error was as expected. +289: Return code was 0. +289: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/multiple_sequence_alignment/msa.cpp.stdout", "None". +289: Standard output was as expected. +289: Standard error was as expected. +115: FileStreamTest_SeekLarge type parameter seqan::MMap >, unsigned long> > OK +319: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram. +319: Return code was 0. +319: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp.stdout", "None". +319: Standard output was as expected. +319: Standard error was as expected. +311: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +311: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +86: test_pipe_test_mapper_partially_filled OK +317: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +317: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +308: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1_solution. +308: Return code was 0. +308: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp.stdout", "None". +308: Standard output was as expected. +308: Standard error was as expected. +320: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +320: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +309: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2. +312: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3_solution. +321: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +321: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +286/414 Test #288: test_demo_tutorial_multiple_sequence_alignment_consensus .......................... Passed 0.39 sec +287/414 Test #289: test_demo_tutorial_multiple_sequence_alignment_msa ................................ Passed 0.38 sec +288/414 Test #292: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_assignment2 ....... Passed 0.35 sec +289/414 Test #294: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_overlap ........... Passed 0.33 sec +290/414 Test #307: test_demo_tutorial_pattern_matching_assignment1 ................................... Passed 0.20 sec +291/414 Test #310: test_demo_tutorial_pattern_matching_assignment2_solution .......................... Passed 0.17 sec +292/414 Test #319: test_demo_tutorial_q_gram_index_index_qgram ....................................... Passed 0.11 sec test 328 Start 328: test_demo_tutorial_sam_and_bam_io_solution2 @@ -312029,23 +310456,98 @@ 334: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp.stdout" 334: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 334: Test timeout computed to be: 10000000 -313: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -313: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +314: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +314: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +314: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_exact. +314: Return code was 0. +314: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp.stdout", "None". +314: Standard output was as expected. +314: Standard error was as expected. +309: Return code was 0. +309: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp.stdout", "None". +309: Standard output was as expected. +309: Standard error was as expected. +318: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment6. +318: Return code was 0. +318: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.cpp.stdout", "None". +318: Standard output was as expected. +318: Standard error was as expected. +316: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index_multiple. +316: Return code was 0. +316: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp.stdout", "None". +316: Standard output was as expected. +316: Standard error was as expected. +303: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step4. +303: Return code was 0. +303: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step4.cpp.stdout", "None". +303: Standard output was as expected. +303: Standard error was as expected. +323: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +323: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +312: Return code was 0. +312: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp.stdout", "None". +312: Standard output was as expected. +312: Standard error was as expected. 313: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_approx. 313: Return code was 0. 313: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_approx.cpp.stdout", "None". 313: Standard output was as expected. 313: Standard error was as expected. -308: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -308: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -308: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1_solution. -308: Return code was 0. -308: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1_solution.cpp.stdout", "None". -308: Standard output was as expected. -308: Standard error was as expected. -295/414 Test #274: test_demo_tutorial_journaled_set_solution_online_search_assignment2 ............... Passed 0.35 sec -296/414 Test #299: test_demo_tutorial_pairwise_sequence_alignment_assignment5 ........................ Passed 0.20 sec -297/414 Test #304: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step5 .................. Passed 0.16 sec +296: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +296: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +321: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step1. +321: Return code was 0. +321: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp.stdout", "None". +321: Standard output was as expected. +321: Standard error was as expected. +305: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_assignment5_step6. +305: Return code was 0. +305: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/assignment5_step6.cpp.stdout", "None". +305: Standard output was as expected. +305: Standard error was as expected. +115: VStreamTest_Construct type parameter seqan::Tag OK +115: VStreamTest_Construct type parameter seqan::Tag OK +115: VStreamTest_Construct type parameter seqan::Tag OK +115: VStreamTest_Construct type parameter seqan::Tag OK +115: VStreamTest_OpenClose type parameter seqan::Tag OK +84: test_parallel_atomic_max OK +84: test_parallel_splitter_equidistant OK +84: test_parallel_splitting_compute_splitters OK +320: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram_hash. +320: Return code was 0. +320: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.cpp.stdout", "None". +320: Standard output was as expected. +320: Standard error was as expected. +324: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +324: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +324: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example1. +322: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +322: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +322: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step2. +311: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3. +311: Return code was 0. +311: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp.stdout", "None". +311: Standard output was as expected. +311: Standard error was as expected. +317: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment5. +317: Return code was 0. +317: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp.stdout", "None". +317: Standard output was as expected. +317: Standard error was as expected. +325: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +325: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +293/414 Test #308: test_demo_tutorial_pattern_matching_assignment1_solution .......................... Passed 0.26 sec +294/414 Test #309: test_demo_tutorial_pattern_matching_assignment2 ................................... Passed 0.25 sec +295/414 Test #312: test_demo_tutorial_pattern_matching_assignment3_solution .......................... Passed 0.22 sec +296/414 Test #313: test_demo_tutorial_pattern_matching_find_approx ................................... Passed 0.22 sec +297/414 Test #315: test_demo_tutorial_pattern_matching_find_index .................................... Passed 0.21 sec +298/414 Test #316: test_demo_tutorial_pattern_matching_find_index_multiple ........................... Passed 0.21 sec +299/414 Test #318: test_demo_tutorial_q_gram_index_index_assignment6 ................................. Passed 0.19 sec +300/414 Test #320: test_demo_tutorial_q_gram_index_index_qgram_hash .................................. Passed 0.18 sec +323: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_base. +115: VStreamTest_OpenClose type parameter seqan::Tag OK +115: VStreamTest_OpenClose type parameter seqan::Tag OK +115: VStreamTest_OpenClose type parameter seqan::Tag OK test 335 Start 335: test_demo_tutorial_seed_and_extend_example6 @@ -312064,145 +310566,6 @@ 337: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp.stdout" 337: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 337: Test timeout computed to be: 10000000 -298/414 Test #313: test_demo_tutorial_pattern_matching_find_approx ................................... Passed 0.13 sec -299/414 Test #308: test_demo_tutorial_pattern_matching_assignment1_solution .......................... Passed 0.16 sec -316: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -316: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -316: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index_multiple. -316: Return code was 0. -316: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index_multiple.cpp.stdout", "None". -316: Standard output was as expected. -316: Standard error was as expected. -300/414 Test #316: test_demo_tutorial_pattern_matching_find_index_multiple ........................... Passed 0.12 sec -301/414 Test #306: test_demo_tutorial_parsing_command_line_arguments_base ............................ Passed 0.17 sec -309: Return code was 0. -309: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2.cpp.stdout", "None". -309: Standard output was as expected. -309: Standard error was as expected. -302/414 Test #309: test_demo_tutorial_pattern_matching_assignment2 ................................... Passed 0.16 sec -303/414 Test #303: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 .................. Passed 0.19 sec -312: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3_solution. -312: Return code was 0. -312: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3_solution.cpp.stdout", "None". -312: Standard output was as expected. -312: Standard error was as expected. -304/414 Test #312: test_demo_tutorial_pattern_matching_assignment3_solution .......................... Passed 0.15 sec -310: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment2_solution. -310: Return code was 0. -310: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment2_solution.cpp.stdout", "None". -310: Standard output was as expected. -310: Standard error was as expected. -305/414 Test #310: test_demo_tutorial_pattern_matching_assignment2_solution .......................... Passed 0.16 sec -115: VStreamTest_Compression type parameter seqan::Tag OK -115: VStreamTest_Compression type parameter seqan::Tag OK -115: VStreamTest_AutoDetection type parameter seqan::Tag OK -115: VStreamTest_AutoDetection type parameter seqan::Tag OK -115: VStreamTest_AutoDetection type parameter seqan::Tag OK -115: VStreamTest_AutoDetection type parameter seqan::Tag OK -115: WriteTest_StdString type parameter seqan::String > OK -115: InputStreamTest_Open type parameter std::basic_fstream > OK -115: InputStreamTest_Open type parameter std::basic_ifstream > OK -307: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment1. -307: Return code was 0. -307: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment1.cpp.stdout", "None". -307: Standard output was as expected. -307: Standard error was as expected. -306/414 Test #307: test_demo_tutorial_pattern_matching_assignment1 ................................... Passed 0.18 sec -314: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -314: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -314: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_exact. -314: Return code was 0. -314: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_exact.cpp.stdout", "None". -314: Standard output was as expected. -314: Standard error was as expected. -307/414 Test #314: test_demo_tutorial_pattern_matching_find_exact .................................... Passed 0.14 sec -311: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_assignment3. -311: Return code was 0. -311: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/assignment3.cpp.stdout", "None". -311: Standard output was as expected. -311: Standard error was as expected. -308/414 Test #311: test_demo_tutorial_pattern_matching_assignment3 ................................... Passed 0.16 sec -319: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -319: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -319: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram. -319: Return code was 0. -319: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram.cpp.stdout", "None". -319: Standard output was as expected. -319: Standard error was as expected. -309/414 Test #319: test_demo_tutorial_q_gram_index_index_qgram ....................................... Passed 0.12 sec -315: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -315: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -315: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pattern_matching_find_index. -315: Return code was 0. -315: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pattern_matching/find_index.cpp.stdout", "None". -315: Standard output was as expected. -315: Standard error was as expected. -310/414 Test #315: test_demo_tutorial_pattern_matching_find_index .................................... Passed 0.13 sec -318: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -318: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -318: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment6. -318: Return code was 0. -318: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment6.cpp.stdout", "None". -318: Standard output was as expected. -318: Standard error was as expected. -311/414 Test #318: test_demo_tutorial_q_gram_index_index_assignment6 ................................. Passed 0.12 sec -317: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -317: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -317: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_assignment5. -317: Return code was 0. -317: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_assignment5.cpp.stdout", "None". -317: Standard output was as expected. -317: Standard error was as expected. -320: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -320: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -320: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_q_gram_index_index_qgram_hash. -320: Return code was 0. -320: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/q_gram_index/index_qgram_hash.cpp.stdout", "None". -320: Standard output was as expected. -320: Standard error was as expected. -321: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -321: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -321: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step1. -321: Return code was 0. -321: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step1.cpp.stdout", "None". -321: Standard output was as expected. -321: Standard error was as expected. -322: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -322: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -322: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_realignment_step2. -323: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -323: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -323: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_base. -323: Return code was 0. -323: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp.stdout", "None". -323: Standard output was as expected. -323: Standard error was as expected. -324: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -324: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -324: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example1. -324: Return code was 0. -324: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example1.cpp.stdout", "None". -324: Standard output was as expected. -324: Standard error was as expected. -325: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -325: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -325: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example2. -325: Return code was 0. -325: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp.stdout", "None". -325: Standard output was as expected. -325: Standard error was as expected. -326: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -326: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -326: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example7. -327: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -327: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -328: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -328: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -328: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution2. -328: Return code was 0. -328: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp.stdout", "None". -328: Standard output was as expected. -328: Standard error was as expected. test 338 Start 338: test_demo_tutorial_seed_and_extend_solution2 @@ -312233,6 +310596,59 @@ 342: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution6" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp.stdout" 342: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 342: Test timeout computed to be: 10000000 +326: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +326: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +326: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example7. +290: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_banded. +290: Return code was 0. +290: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_banded.cpp.stdout", "None". +290: Standard output was as expected. +290: Standard error was as expected. +323: Return code was 0. +323: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/base.cpp.stdout", "None". +323: Standard output was as expected. +323: Standard error was as expected. +115: VStreamTest_Decompression type parameter seqan::Tag OK +115: VStreamTest_Decompression type parameter seqan::Tag OK +115: VStreamTest_Decompression type parameter seqan::Tag OK +115: VStreamTest_Decompression type parameter seqan::Tag OK +84: test_parallel_sum OK +328: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +328: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +327: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +327: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +276: Return code was 0. +276: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment4.cpp.stdout", "None". +276: Standard output was as expected. +276: Standard error was as expected. +296: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_pairwise_sequence_alignment_alignment_global_standard. +325: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_example2. +325: Return code was 0. +325: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example2.cpp.stdout", "None". +325: Standard output was as expected. +325: Standard error was as expected. +331: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +331: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +333: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +333: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +330: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +330: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +329: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +329: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +334: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +334: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +301/414 Test #276: test_demo_tutorial_journaled_set_solution_online_search_assignment4 ............... Passed 0.62 sec +302/414 Test #290: test_demo_tutorial_pairwise_sequence_alignment_alignment_banded ................... Passed 0.50 sec +303/414 Test #303: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step4 .................. Passed 0.37 sec +304/414 Test #305: test_demo_tutorial_pairwise_sequence_alignment_assignment5_step6 .................. Passed 0.34 sec +305/414 Test #311: test_demo_tutorial_pattern_matching_assignment3 ................................... Passed 0.29 sec +306/414 Test #314: test_demo_tutorial_pattern_matching_find_exact .................................... Passed 0.27 sec +307/414 Test #317: test_demo_tutorial_q_gram_index_index_assignment5 ................................. Passed 0.26 sec +308/414 Test #321: test_demo_tutorial_realignment_step1 .............................................. Passed 0.23 sec +309/414 Test #323: test_demo_tutorial_sam_and_bam_io_base ............................................ Passed 0.18 sec +333: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example4. +66: IndexTest_ClearEmpty type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK test 343 Start 343: test_demo_tutorial_seeds_example1 @@ -312287,40 +310703,196 @@ 351: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_2_solution" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_2_solution.cpp.stdout" 351: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 351: Test timeout computed to be: 10000000 -331: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -331: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +333: Return code was 0. +333: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp.stdout", "None". +333: Standard output was as expected. +333: Standard error was as expected. +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +66: IndexTest_OpenSave type parameter seqan::Index >, seqan::FMIndex > > OK +328: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution2. +328: Return code was 0. +328: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution2.cpp.stdout", "None". +328: Standard output was as expected. +328: Standard error was as expected. +332: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +332: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +332: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example3. +332: Return code was 0. +332: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp.stdout", "None". +324: Return code was 0. +324: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example1.cpp.stdout", "None". +324: Standard output was as expected. +324: Standard error was as expected. +334: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example5. +334: Return code was 0. +334: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp.stdout", "None". +334: Standard output was as expected. +334: Standard error was as expected. +296: Return code was 0. +296: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/pairwise_sequence_alignment/alignment_global_standard.cpp.stdout", "None". +296: Standard output was as expected. +296: Standard error was as expected. +330: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example1. +330: Return code was 0. +330: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp.stdout", "None". +330: Standard output was as expected. +330: Standard error was as expected. +336: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +336: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +336: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example7. +336: Return code was 0. +336: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp.stdout", "None". +335: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +335: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +335: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example6. +335: Return code was 0. +335: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp.stdout", "None". +335: Standard output was as expected. +335: Standard error was as expected. 331: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example2. 331: Return code was 0. 331: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example2.cpp.stdout", "None". 331: Standard output was as expected. 331: Standard error was as expected. -329: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -329: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +339: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +339: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +339: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution3. +327: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution1. +327: Return code was 0. +327: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp.stdout", "None". +327: Standard output was as expected. +327: Standard error was as expected. +342: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +342: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +342: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution6. +342: Return code was 0. +342: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp.stdout", "None". +342: Standard output was as expected. +342: Standard error was as expected. 329: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution3. 329: Return code was 0. 329: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution3.cpp.stdout", "None". 329: Standard output was as expected. 329: Standard error was as expected. -332: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -332: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -332: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example3. -332: Return code was 0. -332: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example3.cpp.stdout", "None". +115: VStreamTest_Compression type parameter seqan::Tag OK +84: test_parallel_partial_sum OK +84: test_parallel_queue_simple OK +84: test_parallel_queue_resize OK +84: test_parallel_queue_non_pod OK +84: threads: 2 +84: writers: 1 +340: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +340: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +340: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution4. +337: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +337: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +337: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution1. +338: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +338: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +341: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +341: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +341: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution5. +326: Return code was 0. +326: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp.stdout", "None". +343: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +343: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +343: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seeds_example1. +344: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +344: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +345: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +345: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +348: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +348: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +310/414 Test #296: test_demo_tutorial_pairwise_sequence_alignment_alignment_global_standard .......... Passed 0.59 sec +311/414 Test #324: test_demo_tutorial_sam_and_bam_io_example1 ........................................ Passed 0.47 sec +312/414 Test #325: test_demo_tutorial_sam_and_bam_io_example2 ........................................ Passed 0.47 sec +313/414 Test #327: test_demo_tutorial_sam_and_bam_io_solution1 ....................................... Passed 0.44 sec +314/414 Test #328: test_demo_tutorial_sam_and_bam_io_solution2 ....................................... Passed 0.43 sec +315/414 Test #329: test_demo_tutorial_sam_and_bam_io_solution3 ....................................... Passed 0.42 sec +316/414 Test #330: test_demo_tutorial_seed_and_extend_example1 ....................................... Passed 0.40 sec +317/414 Test #331: test_demo_tutorial_seed_and_extend_example2 ....................................... Passed 0.39 sec +318/414 Test #333: test_demo_tutorial_seed_and_extend_example4 ....................................... Passed 0.37 sec +319/414 Test #334: test_demo_tutorial_seed_and_extend_example5 ....................................... Passed 0.37 sec +320/414 Test #335: test_demo_tutorial_seed_and_extend_example6 ....................................... Passed 0.36 sec +321/414 Test #342: test_demo_tutorial_seed_and_extend_solution6 ...................................... Passed 0.32 sec 332: Standard output was as expected. 332: Standard error was as expected. -333: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -333: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -333: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example4. -333: Return code was 0. -333: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example4.cpp.stdout", "None". -333: Standard output was as expected. -333: Standard error was as expected. -312/414 Test #317: test_demo_tutorial_q_gram_index_index_assignment5 ................................. Passed 0.20 sec -313/414 Test #320: test_demo_tutorial_q_gram_index_index_qgram_hash .................................. Passed 0.18 sec -314/414 Test #323: test_demo_tutorial_sam_and_bam_io_base ............................................ Passed 0.17 sec -315/414 Test #324: test_demo_tutorial_sam_and_bam_io_example1 ........................................ Passed 0.17 sec -316/414 Test #325: test_demo_tutorial_sam_and_bam_io_example2 ........................................ Passed 0.17 sec -317/414 Test #328: test_demo_tutorial_sam_and_bam_io_solution2 ....................................... Passed 0.15 sec +336: Standard output was as expected. +336: Standard error was as expected. +84: stop reader #1 100000 +84: throughput: 1159365 values/s +84: cap: 30 +84: test_parallel_queue_spsc_fixedsize OK +84: threads: 2 +84: writers: 1 +84: stop reader #1 100000 +84: throughput: 4339587 values/s +84: cap: 50886 +84: test_parallel_queue_spsc_dynamicsize OK +84: threads: 4 +84: writers: 1 +338: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution2. +326: Standard output was as expected. +326: Standard error was as expected. +344: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_base. +345: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_example1. +348: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution3. +274: Return code was 0. +274: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/journaled_set/solution_online_search_assignment2.cpp.stdout", "None". +349: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +349: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +349: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution4. +350: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +350: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +350: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_1_solution. +351: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +351: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +351: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_2_solution. +347: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +347: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +347: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution2. +346: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +346: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +346: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution1. +71: IndexFinderTest_FindFirstChar type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexSa > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::IndexEsa > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::FMIndex > > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +71: IndexFinderTest_DefaultFinder type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexSa > OK +71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::IndexEsa > OK +71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::FMIndex > > OK +71: IndexFinderTest_StdString type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdString type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexSa > OK +71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::IndexEsa > OK +71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Packed > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::FMIndex > > OK +71: IndexFinderTest_StdVector type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +71: IndexFinderTest_StdVector type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +71: ************************************** +71: Total Tests: 32 +71: Skipped: 0 +71: Errors: 0 +71: ************************************** +322/414 Test #71: test_test_index_finder ............................................................ Passed 3.32 sec +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +322: Return code was 0. +322: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp.stdout", "None". +322: Standard output was as expected. +322: Standard error was as expected. test 352 Start 352: test_demo_tutorial_sequences_assignment_3_solution @@ -312357,86 +310929,6 @@ 357: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_copy" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_copy.cpp.stdout" 357: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 357: Test timeout computed to be: 10000000 -318/414 Test #331: test_demo_tutorial_seed_and_extend_example2 ....................................... Passed 0.15 sec -319/414 Test #329: test_demo_tutorial_sam_and_bam_io_solution3 ....................................... Passed 0.17 sec -320/414 Test #332: test_demo_tutorial_seed_and_extend_example3 ....................................... Passed 0.15 sec -321/414 Test #333: test_demo_tutorial_seed_and_extend_example4 ....................................... Passed 0.15 sec -322/414 Test #321: test_demo_tutorial_realignment_step1 .............................................. Passed 0.21 sec -326: Return code was 0. -326: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/example7.cpp.stdout", "None". -326: Standard output was as expected. -326: Standard error was as expected. -323/414 Test #326: test_demo_tutorial_sam_and_bam_io_example7 ........................................ Passed 0.18 sec -330: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -330: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -330: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example1. -330: Return code was 0. -330: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example1.cpp.stdout", "None". -330: Standard output was as expected. -330: Standard error was as expected. -324/414 Test #330: test_demo_tutorial_seed_and_extend_example1 ....................................... Passed 0.16 sec -327: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sam_and_bam_io_solution1. -327: Return code was 0. -327: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sam_and_bam_io/solution1.cpp.stdout", "None". -327: Standard output was as expected. -327: Standard error was as expected. -325/414 Test #327: test_demo_tutorial_sam_and_bam_io_solution1 ....................................... Passed 0.18 sec -334: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -334: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -334: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example5. -334: Return code was 0. -334: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example5.cpp.stdout", "None". -334: Standard output was as expected. -334: Standard error was as expected. -326/414 Test #334: test_demo_tutorial_seed_and_extend_example5 ....................................... Passed 0.15 sec -335: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -335: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -335: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example6. -335: Return code was 0. -335: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example6.cpp.stdout", "None". -335: Standard output was as expected. -335: Standard error was as expected. -327/414 Test #335: test_demo_tutorial_seed_and_extend_example6 ....................................... Passed 0.13 sec -337: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -337: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -337: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution1. -337: Return code was 0. -337: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp.stdout", "None". -337: Standard output was as expected. -337: Standard error was as expected. -328/414 Test #337: test_demo_tutorial_seed_and_extend_solution1 ...................................... Passed 0.12 sec -67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -336: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -336: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -336: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_example7. -336: Return code was 0. -336: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/example7.cpp.stdout", "None". -336: Standard output was as expected. -336: Standard error was as expected. -329/414 Test #336: test_demo_tutorial_seed_and_extend_example7 ....................................... Passed 0.12 sec -338: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -338: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -339: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -339: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -339: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution3. -339: Return code was 0. -339: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution3.cpp.stdout", "None". -339: Standard output was as expected. -339: Standard error was as expected. -340: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -340: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -340: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution4. -340: Return code was 0. -340: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution4.cpp.stdout", "None". -340: Standard output was as expected. -340: Standard error was as expected. -346: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -346: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -346: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution1. -346: Return code was 0. -346: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout", "None". -346: Standard output was as expected. -346: Standard error was as expected. test 358 Start 358: test_demo_tutorial_sequences_example_conversions_move @@ -312473,12 +310965,131 @@ 363: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp.stdout" 363: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 363: Test timeout computed to be: 10000000 +323/414 Test #332: test_demo_tutorial_seed_and_extend_example3 ....................................... Passed 0.47 sec +324/414 Test #336: test_demo_tutorial_seed_and_extend_example7 ....................................... Passed 0.45 sec +84: stop reader #1 29334 +84: stop reader #2 37553 +84: stop reader #3 33113 +84: throughput: 733954 values/s +84: cap: 30 +84: test_parallel_queue_spmc_fixedsize OK +84: threads: 4 +84: writers: 1 +84: stop reader #2 43629 +84: stop reader #3 16468 +84: stop reader #1 39903 +84: throughput: 2216480 values/s +84: cap: 33923 +84: test_parallel_queue_spmc_dynamicsize OK +84: threads: 3 +84: writers: 2 +84: stop reader #2 100000 +84: throughput: 3099095 values/s +84: cap: 30 +84: test_parallel_queue_mpsc_fixedsize OK +84: test_parallel_thread_pool_construct OK +84: test_parallel_thread_pool_spawn OK +338: Return code was 0. +338: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp.stdout", "None". +338: Standard output was as expected. +338: Standard error was as expected. +325/414 Test #338: test_demo_tutorial_seed_and_extend_solution2 ...................................... Passed 0.44 sec +326/414 Test #326: test_demo_tutorial_sam_and_bam_io_example7 ........................................ Passed 0.55 sec +344: Return code was 0. +344: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout", "None". +344: Standard output was as expected. +344: Standard error was as expected. +327/414 Test #344: test_demo_tutorial_sequence_io_base ............................................... Passed 0.38 sec +345: Return code was 0. +345: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout", "None". +345: Standard output was as expected. +345: Standard error was as expected. +328/414 Test #345: test_demo_tutorial_sequence_io_example1 ........................................... Passed 0.34 sec +348: Return code was 0. +348: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp.stdout", "None". +348: Standard output was as expected. +348: Standard error was as expected. +274: Standard output was as expected. +274: Standard error was as expected. +329/414 Test #274: test_demo_tutorial_journaled_set_solution_online_search_assignment2 ............... Passed 1.04 sec +349: Return code was 0. +349: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp.stdout", "None". +349: Standard output was as expected. +349: Standard error was as expected. +330/414 Test #349: test_demo_tutorial_sequence_io_solution4 .......................................... Passed 0.29 sec +350: Return code was 0. +350: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_1_solution.cpp.stdout", "None". +350: Standard output was as expected. +350: Standard error was as expected. +331/414 Test #350: test_demo_tutorial_sequences_assignment_1_solution ................................ Passed 0.29 sec +351: Return code was 0. +351: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_2_solution.cpp.stdout", "None". +351: Standard output was as expected. +351: Standard error was as expected. +332/414 Test #351: test_demo_tutorial_sequences_assignment_2_solution ................................ Passed 0.27 sec +347: Return code was 0. +347: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution2.cpp.stdout", "None". +347: Standard output was as expected. +347: Standard error was as expected. +333/414 Test #347: test_demo_tutorial_sequence_io_solution2 .......................................... Passed 0.33 sec +346: Return code was 0. +346: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution1.cpp.stdout", "None". +346: Standard output was as expected. +346: Standard error was as expected. +334/414 Test #346: test_demo_tutorial_sequence_io_solution1 .......................................... Passed 0.34 sec +335/414 Test #322: test_demo_tutorial_realignment_step2 .............................................. Passed 0.59 sec test 364 Start 364: test_demo_tutorial_sequences_in_depth_example_overflow 364: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_example_overflow" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/example_overflow.cpp.stdout" 364: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 364: Test timeout computed to be: 10000000 +343: Return code was 0. +343: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout", "None". +343: Standard output was as expected. +343: Standard error was as expected. +336/414 Test #343: test_demo_tutorial_seeds_example1 ................................................. Passed 0.41 sec +86: test_pipe_test_sorter OK +86: test_pipe_sampler OK +86: test_pipe_tupler OK +86: test_pipe_tupler_multi OK +86: ************************************** +86: Total Tests: 8 +86: Skipped: 0 +86: Errors: 0 +86: ************************************** +337/414 Test #86: test_test_pipe .................................................................... Passed 3.10 sec +339: Return code was 0. +339: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution3.cpp.stdout", "None". +339: Standard output was as expected. +339: Standard error was as expected. +338/414 Test #339: test_demo_tutorial_seed_and_extend_solution3 ...................................... Passed 0.44 sec +337: Return code was 0. +337: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution1.cpp.stdout", "None". +337: Standard output was as expected. +337: Standard error was as expected. +339/414 Test #337: test_demo_tutorial_seed_and_extend_solution1 ...................................... Passed 0.45 sec +340: Return code was 0. +340: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution4.cpp.stdout", "None". +340: Standard output was as expected. +340: Standard error was as expected. +341: Return code was 0. +341: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp.stdout", "None". +341: Standard output was as expected. +341: Standard error was as expected. +340/414 Test #341: test_demo_tutorial_seed_and_extend_solution5 ...................................... Passed 0.42 sec +352: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +352: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +353: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +353: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +353: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_4_solution. +353: Return code was 0. +353: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp.stdout", "None". +353: Standard output was as expected. +353: Standard error was as expected. +354: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +354: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +354: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_5_solution. test 365 Start 365: test_demo_tutorial_simple_rna_seq_base @@ -312509,149 +311120,12 @@ 369: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment4" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp.stdout" 369: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 369: Test timeout computed to be: 10000000 -338: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution2. -338: Return code was 0. -338: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution2.cpp.stdout", "None". -338: Standard output was as expected. -338: Standard error was as expected. -330/414 Test #339: test_demo_tutorial_seed_and_extend_solution3 ...................................... Passed 0.15 sec -344: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -344: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -344: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_base. -344: Return code was 0. -344: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/base.cpp.stdout", "None". -344: Standard output was as expected. -344: Standard error was as expected. -342: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -342: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -342: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution6. -342: Return code was 0. -342: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution6.cpp.stdout", "None". -342: Standard output was as expected. -342: Standard error was as expected. -341: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -341: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -341: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seed_and_extend_solution5. -341: Return code was 0. -341: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seed_and_extend/solution5.cpp.stdout", "None". -341: Standard output was as expected. -341: Standard error was as expected. -343: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -343: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -343: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_seeds_example1. -343: Return code was 0. -343: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/seeds/example1.cpp.stdout", "None". -343: Standard output was as expected. -343: Standard error was as expected. -347: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -347: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -347: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution2. -347: Return code was 0. -347: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution2.cpp.stdout", "None". -347: Standard output was as expected. -347: Standard error was as expected. -345: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -345: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -345: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_example1. -345: Return code was 0. -345: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/example1.cpp.stdout", "None". -345: Standard output was as expected. -345: Standard error was as expected. -348: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -348: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -348: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution3. -348: Return code was 0. -348: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution3.cpp.stdout", "None". -348: Standard output was as expected. -348: Standard error was as expected. -349: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -349: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -349: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequence_io_solution4. -349: Return code was 0. -349: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequence_io/solution4.cpp.stdout", "None". -349: Standard output was as expected. -349: Standard error was as expected. test 370 Start 370: test_demo_tutorial_simple_rna_seq_genequant_assignment5 370: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment5" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp.stdout" 370: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 370: Test timeout computed to be: 10000000 -351: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -351: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -351: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_2_solution. -351: Return code was 0. -351: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_2_solution.cpp.stdout", "None". -351: Standard output was as expected. -351: Standard error was as expected. -350: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -350: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -350: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_1_solution. -350: Return code was 0. -350: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_1_solution.cpp.stdout", "None". -353: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -353: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -353: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_4_solution. -353: Return code was 0. -353: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_4_solution.cpp.stdout", "None". -353: Standard output was as expected. -353: Standard error was as expected. -356: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -356: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -356: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_comparisons. -356: Return code was 0. -356: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp.stdout", "None". -356: Standard output was as expected. -356: Standard error was as expected. -352: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -352: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -352: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_3_solution. -352: Return code was 0. -352: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp.stdout", "None". -352: Standard output was as expected. -352: Standard error was as expected. -355: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -355: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -355: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_6_solution. -355: Return code was 0. -355: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp.stdout", "None". -355: Standard output was as expected. -355: Standard error was as expected. -357: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -357: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -357: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_copy. -357: Return code was 0. -357: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_copy.cpp.stdout", "None". -357: Standard output was as expected. -357: Standard error was as expected. -354: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -354: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -359: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -359: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -359: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality1. -359: Return code was 0. -359: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp.stdout", "None". -359: Standard output was as expected. -359: Standard error was as expected. -362: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -362: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -363: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -363: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -331/414 Test #338: test_demo_tutorial_seed_and_extend_solution2 ...................................... Passed 0.16 sec -332/414 Test #340: test_demo_tutorial_seed_and_extend_solution4 ...................................... Passed 0.16 sec -333/414 Test #341: test_demo_tutorial_seed_and_extend_solution5 ...................................... Passed 0.16 sec -334/414 Test #342: test_demo_tutorial_seed_and_extend_solution6 ...................................... Passed 0.15 sec -335/414 Test #343: test_demo_tutorial_seeds_example1 ................................................. Passed 0.15 sec -336/414 Test #344: test_demo_tutorial_sequence_io_base ............................................... Passed 0.14 sec -337/414 Test #345: test_demo_tutorial_sequence_io_example1 ........................................... Passed 0.13 sec -338/414 Test #346: test_demo_tutorial_sequence_io_solution1 .......................................... Passed 0.13 sec -339/414 Test #347: test_demo_tutorial_sequence_io_solution2 .......................................... Passed 0.12 sec -340/414 Test #348: test_demo_tutorial_sequence_io_solution3 .......................................... Passed 0.12 sec -341/414 Test #349: test_demo_tutorial_sequence_io_solution4 .......................................... Passed 0.11 sec -342/414 Test #351: test_demo_tutorial_sequences_assignment_2_solution ................................ Passed 0.11 sec -343/414 Test #353: test_demo_tutorial_sequences_assignment_4_solution ................................ Passed 0.09 sec -344/414 Test #356: test_demo_tutorial_sequences_example_comparisons .................................. Passed 0.08 sec test 371 Start 371: test_demo_tutorial_simple_rna_seq_genequant_solution1 @@ -312724,24 +311198,13 @@ 382: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality.cpp.stdout" 382: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos 382: Test timeout computed to be: 10000000 -test 383 - Start 383: test_demo_tutorial_string_sets_example_functionality_2 - -383: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp.stdout" -383: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -383: Test timeout computed to be: 10000000 -test 384 - Start 384: test_demo_tutorial_string_sets_example_iterators - -384: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_iterators" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp.stdout" -384: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -384: Test timeout computed to be: 10000000 -350: Standard output was as expected. -350: Standard error was as expected. -345/414 Test #352: test_demo_tutorial_sequences_assignment_3_solution ................................ Passed 0.15 sec -346/414 Test #355: test_demo_tutorial_sequences_assignment_6_solution ................................ Passed 0.14 sec -347/414 Test #357: test_demo_tutorial_sequences_example_conversions_copy ............................. Passed 0.14 sec -362: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution. +355: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +355: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +355: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_6_solution. +355: Return code was 0. +355: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_6_solution.cpp.stdout", "None". +355: Standard output was as expected. +355: Standard error was as expected. 358: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 358: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 358: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_move. @@ -312749,6 +311212,36 @@ 358: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_move.cpp.stdout", "None". 358: Standard output was as expected. 358: Standard error was as expected. +352: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_3_solution. +352: Return code was 0. +352: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_3_solution.cpp.stdout", "None". +352: Standard output was as expected. +352: Standard error was as expected. +354: Return code was 0. +354: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp.stdout", "None". +354: Standard output was as expected. +354: Standard error was as expected. +356: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +356: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +356: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_comparisons. +356: Return code was 0. +356: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_comparisons.cpp.stdout", "None". +356: Standard output was as expected. +356: Standard error was as expected. +359: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +359: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +359: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality1. +359: Return code was 0. +359: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality1.cpp.stdout", "None". +359: Standard output was as expected. +359: Standard error was as expected. +357: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +357: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +357: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_conversions_copy. +357: Return code was 0. +357: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_conversions_copy.cpp.stdout", "None". +357: Standard output was as expected. +357: Standard error was as expected. 360: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 360: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 360: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_functionality2. @@ -312756,72 +311249,6 @@ 360: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_functionality2.cpp.stdout", "None". 360: Standard output was as expected. 360: Standard error was as expected. -test 385 - Start 385: test_demo_tutorial_vcf_io_base - -385: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp.stdout" -385: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -385: Test timeout computed to be: 10000000 -test 386 - Start 386: test_demo_tutorial_vcf_io_example1 - -386: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp.stdout" -386: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -386: Test timeout computed to be: 10000000 -test 387 - Start 387: test_demo_tutorial_vcf_io_solution1 - -387: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout" -387: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos -387: Test timeout computed to be: 10000000 -348/414 Test #350: test_demo_tutorial_sequences_assignment_1_solution ................................ Passed 0.20 sec -349/414 Test #358: test_demo_tutorial_sequences_example_conversions_move ............................. Passed 0.16 sec -350/414 Test #360: test_demo_tutorial_sequences_example_functionality2 ............................... Passed 0.15 sec -363: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_base. -363: Return code was 0. -363: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp.stdout", "None". -363: Standard output was as expected. -363: Standard error was as expected. -351/414 Test #363: test_demo_tutorial_sequences_in_depth_base ........................................ Passed 0.14 sec -352/414 Test #359: test_demo_tutorial_sequences_example_functionality1 ............................... Passed 0.15 sec -361: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -361: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -361: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_segments. -361: Return code was 0. -361: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_segments.cpp.stdout", "None". -361: Standard output was as expected. -361: Standard error was as expected. -353/414 Test #361: test_demo_tutorial_sequences_example_segments ..................................... Passed 0.15 sec -366: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -366: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -366: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment1. -366: Return code was 0. -366: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.cpp.stdout", "None". -366: Standard output was as expected. -366: Standard error was as expected. -354/414 Test #366: test_demo_tutorial_simple_rna_seq_genequant_assignment1 ........................... Passed 0.13 sec -354: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_assignment_5_solution. -354: Return code was 0. -354: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/assignment_5_solution.cpp.stdout", "None". -354: Standard output was as expected. -354: Standard error was as expected. -355/414 Test #354: test_demo_tutorial_sequences_assignment_5_solution ................................ Passed 0.18 sec -367: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -367: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -367: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment2. -367: Return code was 0. -367: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp.stdout", "None". -367: Standard output was as expected. -367: Standard error was as expected. -356/414 Test #367: test_demo_tutorial_simple_rna_seq_genequant_assignment2 ........................... Passed 0.12 sec -368: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -368: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -368: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment3. -368: Return code was 0. -368: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp.stdout", "None". -368: Standard output was as expected. -368: Standard error was as expected. -357/414 Test #368: test_demo_tutorial_simple_rna_seq_genequant_assignment3 ........................... Passed 0.12 sec 364: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 364: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 364: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_example_overflow. @@ -312829,45 +311256,85 @@ 364: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/example_overflow.cpp.stdout", "None". 364: Standard output was as expected. 364: Standard error was as expected. +361: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +361: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +361: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_example_segments. +363: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +363: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +363: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_base. +363: Return code was 0. +363: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/base.cpp.stdout", "None". +363: Standard output was as expected. +363: Standard error was as expected. +362: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +362: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +362: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_sequences_in_depth_assignment_exact_generous_solution. 365: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 365: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -365: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_base. -365: Return code was 0. -365: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout", "None". -365: Standard output was as expected. -365: Standard error was as expected. -370: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -370: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -370: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment5. -115: InputStreamTest_Get type parameter std::basic_fstream > OK +366: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +366: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +368: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +368: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 369: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 369: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -369: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment4. +370: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +370: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 371: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 371: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -371: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution1. -371: Return code was 0. -371: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp.stdout", "None". -371: Standard output was as expected. -371: Standard error was as expected. -372: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -372: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -372: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution2. -372: Return code was 0. -372: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp.stdout", "None". -372: Standard output was as expected. -372: Standard error was as expected. 373: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 373: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 373: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution3. +341/414 Test #340: test_demo_tutorial_seed_and_extend_solution4 ...................................... Passed 0.58 sec +342/414 Test #348: test_demo_tutorial_sequence_io_solution3 .......................................... Passed 0.46 sec +343/414 Test #352: test_demo_tutorial_sequences_assignment_3_solution ................................ Passed 0.25 sec +344/414 Test #353: test_demo_tutorial_sequences_assignment_4_solution ................................ Passed 0.23 sec +345/414 Test #354: test_demo_tutorial_sequences_assignment_5_solution ................................ Passed 0.23 sec +346/414 Test #355: test_demo_tutorial_sequences_assignment_6_solution ................................ Passed 0.22 sec +347/414 Test #356: test_demo_tutorial_sequences_example_comparisons .................................. Passed 0.22 sec +348/414 Test #357: test_demo_tutorial_sequences_example_conversions_copy ............................. Passed 0.21 sec +349/414 Test #358: test_demo_tutorial_sequences_example_conversions_move ............................. Passed 0.20 sec +350/414 Test #359: test_demo_tutorial_sequences_example_functionality1 ............................... Passed 0.20 sec +351/414 Test #360: test_demo_tutorial_sequences_example_functionality2 ............................... Passed 0.19 sec +352/414 Test #363: test_demo_tutorial_sequences_in_depth_base ........................................ Passed 0.17 sec +353/414 Test #364: test_demo_tutorial_sequences_in_depth_example_overflow ............................ Passed 0.16 sec +361: Return code was 0. +361: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences/example_segments.cpp.stdout", "None". +361: Standard output was as expected. +361: Standard error was as expected. +367: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +367: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") 374: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' 374: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -374: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution4. -375: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -375: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -375: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution5. -376: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -376: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +test 383 + Start 383: test_demo_tutorial_string_sets_example_functionality_2 + +383: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality_2" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp.stdout" +383: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +383: Test timeout computed to be: 10000000 +test 384 + Start 384: test_demo_tutorial_string_sets_example_iterators + +384: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_iterators" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp.stdout" +384: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +384: Test timeout computed to be: 10000000 +test 385 + Start 385: test_demo_tutorial_vcf_io_base + +385: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_base" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp.stdout" +385: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +385: Test timeout computed to be: 10000000 +test 386 + Start 386: test_demo_tutorial_vcf_io_example1 + +386: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_example1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp.stdout" +386: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +386: Test timeout computed to be: 10000000 +test 387 + Start 387: test_demo_tutorial_vcf_io_solution1 + +387: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py" "--binary-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution1" "--stdout-path" "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout" +387: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/demos +387: Test timeout computed to be: 10000000 test 388 Start 388: test_demo_tutorial_vcf_io_solution2 @@ -312916,6 +311383,98 @@ 395: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 395: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/micro_razers 395: Test timeout computed to be: 10000000 +367: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment2. +367: Return code was 0. +367: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment2.cpp.stdout", "None". +367: Standard output was as expected. +367: Standard error was as expected. +374: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution4. +368: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment3. +368: Return code was 0. +368: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment3.cpp.stdout", "None". +368: Standard output was as expected. +368: Standard error was as expected. +369: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment4. +369: Return code was 0. +369: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp.stdout", "None". +369: Standard output was as expected. +369: Standard error was as expected. +371: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution1. +371: Return code was 0. +371: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution1.cpp.stdout", "None". +371: Standard output was as expected. +371: Standard error was as expected. +370: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment5. +370: Return code was 0. +370: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp.stdout", "None". +370: Standard output was as expected. +370: Standard error was as expected. +372: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +372: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +372: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution2. +366: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_assignment1. +366: Return code was 0. +366: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment1.cpp.stdout", "None". +366: Standard output was as expected. +366: Standard error was as expected. +69: TopDownIndexIteratorTest_GoDown type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +69: ************************************** +69: Total Tests: 14 +69: Skipped: 0 +69: Errors: 0 +69: ************************************** +365: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_base. +365: Return code was 0. +365: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/base.cpp.stdout", "None". +365: Standard output was as expected. +365: Standard error was as expected. +376: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +376: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +376: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_interval_tree. +376: Return code was 0. +376: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp.stdout", "None". +376: Standard output was as expected. +376: Standard error was as expected. +375: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +375: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +377: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +377: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +378: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +378: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +378: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2. +378: Return code was 0. +378: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp.stdout", "None". +378: Standard output was as expected. +378: Standard error was as expected. +380: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +380: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +382: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +382: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +115: VStreamTest_Compression type parameter seqan::Tag OK +381: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +381: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +379: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +379: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +383: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +383: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +384: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +384: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +385: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +385: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +388: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +388: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +354/414 Test #69: test_test_index_vstree ............................................................ Passed 3.74 sec +355/414 Test #361: test_demo_tutorial_sequences_example_segments ..................................... Passed 0.33 sec +356/414 Test #365: test_demo_tutorial_simple_rna_seq_base ............................................ Passed 0.29 sec +357/414 Test #366: test_demo_tutorial_simple_rna_seq_genequant_assignment1 ........................... Passed 0.29 sec +358/414 Test #367: test_demo_tutorial_simple_rna_seq_genequant_assignment2 ........................... Passed 0.28 sec +359/414 Test #368: test_demo_tutorial_simple_rna_seq_genequant_assignment3 ........................... Passed 0.27 sec +360/414 Test #369: test_demo_tutorial_simple_rna_seq_genequant_assignment4 ........................... Passed 0.27 sec +361/414 Test #371: test_demo_tutorial_simple_rna_seq_genequant_solution1 ............................. Passed 0.26 sec +372: Return code was 0. +372: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution2.cpp.stdout", "None". +372: Standard output was as expected. +372: Standard error was as expected. test 396 Start 396: app_test_ngs_roi @@ -312928,44 +311487,6 @@ 397: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 397: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/pair_align 397: Test timeout computed to be: 10000000 -379: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -379: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -379: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2_solution. -379: Return code was 0. -379: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp.stdout", "None". -379: Standard output was as expected. -379: Standard error was as expected. -378: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -378: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -378: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2. -378: Return code was 0. -378: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2.cpp.stdout", "None". -378: Standard output was as expected. -378: Standard error was as expected. -377: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -377: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -377: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_1_solution. -377: Return code was 0. -377: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout", "None". -377: Standard output was as expected. -377: Standard error was as expected. -380: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -380: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -380: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_3_workshop_solution. -380: Return code was 0. -380: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp.stdout", "None". -380: Standard output was as expected. -380: Standard error was as expected. -381: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -381: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -381: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_4_workshop_solution. -381: Return code was 0. -381: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp.stdout", "None". -381: Standard output was as expected. -381: Standard error was as expected. -358/414 Test #364: test_demo_tutorial_sequences_in_depth_example_overflow ............................ Passed 0.20 sec -359/414 Test #365: test_demo_tutorial_simple_rna_seq_base ............................................ Passed 0.20 sec -360/414 Test #371: test_demo_tutorial_simple_rna_seq_genequant_solution1 ............................. Passed 0.16 sec test 398 Start 398: test_test_funcs_param_chooser @@ -312984,96 +311505,6 @@ 400: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 400: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/razers 400: Test timeout computed to be: 10000000 -361/414 Test #379: test_demo_tutorial_string_sets_assignment_2_solution .............................. Passed 0.15 sec -362/414 Test #378: test_demo_tutorial_string_sets_assignment_2 ....................................... Passed 0.15 sec -363/414 Test #377: test_demo_tutorial_string_sets_assignment_1_solution .............................. Passed 0.15 sec -364/414 Test #380: test_demo_tutorial_string_sets_assignment_3_workshop_solution ..................... Passed 0.14 sec -365/414 Test #381: test_demo_tutorial_string_sets_assignment_4_workshop_solution ..................... Passed 0.13 sec -376: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_interval_tree. -376: Return code was 0. -376: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/interval_tree.cpp.stdout", "None". -376: Standard output was as expected. -376: Standard error was as expected. -366/414 Test #376: test_demo_tutorial_simple_rna_seq_interval_tree ................................... Passed 0.16 sec -369: Return code was 0. -369: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment4.cpp.stdout", "None". -369: Standard output was as expected. -369: Standard error was as expected. -367/414 Test #369: test_demo_tutorial_simple_rna_seq_genequant_assignment4 ........................... Passed 0.19 sec -368/414 Test #372: test_demo_tutorial_simple_rna_seq_genequant_solution2 ............................. Passed 0.17 sec -370: Return code was 0. -370: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_assignment5.cpp.stdout", "None". -370: Standard output was as expected. -370: Standard error was as expected. -369/414 Test #370: test_demo_tutorial_simple_rna_seq_genequant_assignment5 ........................... Passed 0.19 sec -382: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -382: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -382: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality. -382: Return code was 0. -382: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality.cpp.stdout", "None". -382: Standard output was as expected. -382: Standard error was as expected. -383: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -383: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -383: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality_2. -383: Return code was 0. -383: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp.stdout", "None". -383: Standard output was as expected. -383: Standard error was as expected. -386: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -386: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -386: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_example1. -386: Return code was 0. -386: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp.stdout", "None". -386: Standard output was as expected. -386: Standard error was as expected. -374: Return code was 0. -374: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp.stdout", "None". -374: Standard output was as expected. -374: Standard error was as expected. -370/414 Test #374: test_demo_tutorial_simple_rna_seq_genequant_solution4 ............................. Passed 0.17 sec -375: Return code was 0. -375: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout", "None". -375: Standard output was as expected. -375: Standard error was as expected. -371/414 Test #375: test_demo_tutorial_simple_rna_seq_genequant_solution5 ............................. Passed 0.16 sec -373: Return code was 0. -373: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp.stdout", "None". -373: Standard output was as expected. -373: Standard error was as expected. -372/414 Test #373: test_demo_tutorial_simple_rna_seq_genequant_solution3 ............................. Passed 0.17 sec -385: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -385: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -385: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_base. -385: Return code was 0. -385: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp.stdout", "None". -385: Standard output was as expected. -385: Standard error was as expected. -384: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -384: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -384: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_iterators. -384: Return code was 0. -384: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp.stdout", "None". -384: Standard output was as expected. -384: Standard error was as expected. -387: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -387: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -387: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution1. -387: Return code was 0. -387: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout", "None". -387: Standard output was as expected. -387: Standard error was as expected. -322: Return code was 0. -322: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/realignment/step2.cpp.stdout", "None". -322: Standard output was as expected. -322: Standard error was as expected. -388: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -388: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -388: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution2. -388: Return code was 0. -388: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp.stdout", "None". -388: Standard output was as expected. -388: Standard error was as expected. test 401 Start 401: app_test_razers3 @@ -313092,6 +311523,99 @@ 403: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 403: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak 403: Test timeout computed to be: 10000000 +66: IndexTest_OpenSave type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +388: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution2. +388: Return code was 0. +388: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution2.cpp.stdout", "None". +388: Standard output was as expected. +388: Standard error was as expected. +375: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_simple_rna_seq_genequant_solution5. +375: Return code was 0. +375: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution5.cpp.stdout", "None". +375: Standard output was as expected. +375: Standard error was as expected. +373: Return code was 0. +373: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution3.cpp.stdout", "None". +373: Standard output was as expected. +373: Standard error was as expected. +380: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_3_workshop_solution. +380: Return code was 0. +380: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_3_workshop_solution.cpp.stdout", "None". +380: Standard output was as expected. +380: Standard error was as expected. +386: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +386: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +386: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_example1. +389: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +389: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +389: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution3. +389: Return code was 0. +389: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution3.cpp.stdout", "None". +389: Standard output was as expected. +389: Standard error was as expected. +385: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_base. +385: Return code was 0. +385: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/base.cpp.stdout", "None". +385: Standard output was as expected. +385: Standard error was as expected. +382: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality. +382: Return code was 0. +382: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality.cpp.stdout", "None". +382: Standard output was as expected. +382: Standard error was as expected. +377: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_1_solution. +377: Return code was 0. +377: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_1_solution.cpp.stdout", "None". +377: Standard output was as expected. +377: Standard error was as expected. +387: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' +387: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") +379: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_2_solution. +383: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_functionality_2. +383: Return code was 0. +383: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_functionality_2.cpp.stdout", "None". +383: Standard output was as expected. +383: Standard error was as expected. +381: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_assignment_4_workshop_solution. +384: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_string_sets_example_iterators. +398: TEST SUITE test_param_chooser +398: SEQAN_ENABLE_DEBUG == 1 +398: SEQAN_ENABLE_TESTING == 1 +398: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" +398: SEQAN_ASYNC_IO == 1 +398: test_param_chooser_quality_distribution_from_prb_file OK +398: test_param_chooser_quality_distribution_from_fastq_file OK +398: test_param_chooser_parse_gapped_params OK +398: test_param_parse_shapes_from_file OK +398: ************************************** +398: Total Tests: 4 +398: Skipped: 0 +398: Errors: 0 +398: ************************************** +362/414 Test #370: test_demo_tutorial_simple_rna_seq_genequant_assignment5 ........................... Passed 0.37 sec +363/414 Test #372: test_demo_tutorial_simple_rna_seq_genequant_solution2 ............................. Passed 0.34 sec +364/414 Test #373: test_demo_tutorial_simple_rna_seq_genequant_solution3 ............................. Passed 0.33 sec +365/414 Test #376: test_demo_tutorial_simple_rna_seq_interval_tree ................................... Passed 0.30 sec +366/414 Test #377: test_demo_tutorial_string_sets_assignment_1_solution .............................. Passed 0.29 sec +367/414 Test #378: test_demo_tutorial_string_sets_assignment_2 ....................................... Passed 0.29 sec +368/414 Test #380: test_demo_tutorial_string_sets_assignment_3_workshop_solution ..................... Passed 0.28 sec +369/414 Test #382: test_demo_tutorial_string_sets_example_functionality .............................. Passed 0.27 sec +370/414 Test #385: test_demo_tutorial_vcf_io_base .................................................... Passed 0.23 sec +371/414 Test #388: test_demo_tutorial_vcf_io_solution2 ............................................... Passed 0.20 sec +372/414 Test #398: test_test_funcs_param_chooser ..................................................... Passed 0.08 sec +373/414 Test #375: test_demo_tutorial_simple_rna_seq_genequant_solution5 ............................. Passed 0.32 sec +379: Return code was 0. +379: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_2_solution.cpp.stdout", "None". +379: Standard output was as expected. +379: Standard error was as expected. +381: Return code was 0. +381: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/assignment_4_workshop_solution.cpp.stdout", "None". +381: Standard output was as expected. +381: Standard error was as expected. +384: Return code was 0. +384: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/string_sets/example_iterators.cpp.stdout", "None". +384: Standard output was as expected. +384: Standard error was as expected. test 404 Start 404: app_test_sam2matrix @@ -313146,36 +311670,6 @@ 412: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 412: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/stellar 412: Test timeout computed to be: 10000000 -389: /build/reproducible-path/seqan2-2.4.0+dfsg/util/bin/demo_checker.py:47: SyntaxWarning: invalid escape sequence '\d' -389: P = (re.escape(P)).replace('\\[VAR\\]', "[+-]?(\d+(\.\d*)?|\.\d+)([eE][+-]?\d+)?") -389: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution3. -389: Return code was 0. -389: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution3.cpp.stdout", "None". -389: Standard output was as expected. -389: Standard error was as expected. -67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -398: TEST SUITE test_param_chooser -398: SEQAN_ENABLE_DEBUG == 1 -398: SEQAN_ENABLE_TESTING == 1 -398: SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" -398: SEQAN_ASYNC_IO == 1 -398: test_param_chooser_quality_distribution_from_prb_file OK -398: test_param_chooser_quality_distribution_from_fastq_file OK -398: test_param_chooser_parse_gapped_params OK -398: test_param_parse_shapes_from_file OK -398: ************************************** -398: Total Tests: 4 -398: Skipped: 0 -398: Errors: 0 -398: ************************************** -373/414 Test #322: test_demo_tutorial_realignment_step2 .............................................. Passed 0.51 sec -374/414 Test #382: test_demo_tutorial_string_sets_example_functionality .............................. Passed 0.19 sec -375/414 Test #383: test_demo_tutorial_string_sets_example_functionality_2 ............................ Passed 0.19 sec -376/414 Test #384: test_demo_tutorial_string_sets_example_iterators .................................. Passed 0.19 sec -377/414 Test #385: test_demo_tutorial_vcf_io_base .................................................... Passed 0.18 sec -378/414 Test #386: test_demo_tutorial_vcf_io_example1 ................................................ Passed 0.18 sec -379/414 Test #388: test_demo_tutorial_vcf_io_solution2 ............................................... Passed 0.15 sec -380/414 Test #398: test_test_funcs_param_chooser ..................................................... Passed 0.09 sec test 413 Start 413: app_test_tree_recon @@ -313188,333 +311682,520 @@ 414: Test command: /usr/bin/python3 "/build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/run_tests.py" "/build/reproducible-path/seqan2-2.4.0+dfsg" "/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" 414: Working Directory: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/yara 414: Test timeout computed to be: 10000000 -381/414 Test #389: test_demo_tutorial_vcf_io_solution3 ............................................... Passed 0.14 sec -382/414 Test #387: test_demo_tutorial_vcf_io_solution1 ............................................... Passed 0.17 sec -115: InputStreamTest_Get type parameter std::basic_ifstream > OK -115: InputStreamTest_Eof type parameter std::basic_fstream > OK -115: InputStreamTest_Eof type parameter std::basic_ifstream > OK -115: OutputStreamTest_Open type parameter std::basic_fstream > OK +374/414 Test #379: test_demo_tutorial_string_sets_assignment_2_solution .............................. Passed 0.37 sec +375/414 Test #381: test_demo_tutorial_string_sets_assignment_4_workshop_solution ..................... Passed 0.36 sec +376/414 Test #384: test_demo_tutorial_string_sets_example_iterators .................................. Passed 0.32 sec +386: Return code was 0. +386: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/example1.cpp.stdout", "None". +386: Standard output was as expected. +386: Standard error was as expected. +377/414 Test #386: test_demo_tutorial_vcf_io_example1 ................................................ Passed 0.31 sec +378/414 Test #389: test_demo_tutorial_vcf_io_solution3 ............................................... Passed 0.27 sec +374: Return code was 0. +374: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/simple_rna_seq/genequant_solution4.cpp.stdout", "None". +374: Standard output was as expected. +374: Standard error was as expected. +379/414 Test #374: test_demo_tutorial_simple_rna_seq_genequant_solution4 ............................. Passed 0.41 sec +380/414 Test #383: test_demo_tutorial_string_sets_example_functionality_2 ............................ Passed 0.34 sec +387: Running /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/demo_tutorial_vcf_io_solution1. +387: Return code was 0. +387: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/vcf_io/solution1.cpp.stdout", "None". +387: Standard output was as expected. +387: Standard error was as expected. +381/414 Test #387: test_demo_tutorial_vcf_io_solution1 ............................................... Passed 0.29 sec +67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: LFTest_IsSentinel type parameter seqan::Index >, seqan::FMIndex > > OK +106: StringTestCommon_LessOperator type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_LessOperator type parameter seqan::String > > OK +106: StringTestCommon_LessOperator type parameter seqan::String > > OK +106: StringTestCommon_LessOperator type parameter seqan::String > > OK +106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter seqan::String > OK +106: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_LessOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_LessOperator type parameter std::vector, std::allocator > > OK +106: StringTestCommon_LessOperator type parameter std::vector > OK +106: StringTestCommon_LessOperator type parameter std::vector > OK +106: StringTestCommon_LessOperator type parameter std::vector > OK +106: StringTestCommon_LessOperator type parameter std::deque, std::allocator > > OK +106: StringTestCommon_LessOperator type parameter std::deque > OK +106: StringTestCommon_LessOperator type parameter std::deque > OK +106: StringTestCommon_LessOperator type parameter std::deque > OK +106: StringTestCommon_LessOperator type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_LessOperator type parameter std::forward_list > OK +106: StringTestCommon_LessOperator type parameter std::forward_list > OK +106: StringTestCommon_LessOperator type parameter std::forward_list > OK +106: StringTestCommon_LessOperator type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_LessOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK 414: /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/run_tests.py:25: SyntaxWarning: invalid escape sequence '\.' 414: app_tests.RegexpReplaceTransform("[0-9\.\-e]+ sec", "0.0 sec"), -115: OutputStreamTest_Open type parameter std::basic_ofstream > OK -115: OutputStreamTest_Put type parameter std::basic_fstream > OK -115: OutputStreamTest_Put type parameter std::basic_ofstream > OK -115: InputStreamTest_Tell type parameter std::basic_fstream > OK -115: InputStreamTest_Tell type parameter std::basic_ifstream > OK -115: OutputStreamTest_Tell type parameter std::basic_fstream > OK -115: OutputStreamTest_Tell type parameter std::basic_ofstream > OK -115: ************************************** -115: Total Tests: 213 -115: Skipped: 0 -115: Errors: 0 -115: ************************************** -383/414 Test #115: test_test_stream .................................................................. Passed 3.50 sec -66: IndexTest_OpenSave type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -66: ************************************** -66: Total Tests: 28 -66: Skipped: 0 -66: Errors: 0 -66: ************************************** -384/414 Test #66: test_test_index_base .............................................................. Passed 3.82 sec -362: Return code was 0. -362: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.stdout", "None". -362: Standard output was as expected. -362: Standard error was as expected. -385/414 Test #362: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution .......... Passed 0.52 sec -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK -394: DELETING TEMP DIR /tmp/tmpn65rpatl -394: Executing test for insegt -394: ========================= -394: -394: insegt -ro /tmp/tmpn65rpatl/default_readOutput.gff -ao /tmp/tmpn65rpatl/default_annoOutput.gff -to /tmp/tmpn65rpatl/default_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -394: insegt -c 2 -ro /tmp/tmpn65rpatl/threshold-count2_readOutput.gff -ao /tmp/tmpn65rpatl/threshold-count2_annoOutput.gff -to /tmp/tmpn65rpatl/threshold-count2_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -394: insegt -n 3 -ro /tmp/tmpn65rpatl/ntuple3_readOutput.gff -ao /tmp/tmpn65rpatl/ntuple3_annoOutput.gff -to /tmp/tmpn65rpatl/ntuple3_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -394: insegt -m -ro /tmp/tmpn65rpatl/max-tuple_readOutput.gff -ao /tmp/tmpn65rpatl/max-tuple_annoOutput.gff -to /tmp/tmpn65rpatl/max-tuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -394: insegt -e -ro /tmp/tmpn65rpatl/exact-ntuple_readOutput.gff -ao /tmp/tmpn65rpatl/exact-ntuple_annoOutput.gff -to /tmp/tmpn65rpatl/exact-ntuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK -394: ============================== -394: total tests: 5 -394: failed tests: 0 -394: successful tests: 5 -394: ============================== -404: DELETING TEMP DIR /tmp/tmpku8g69po +404: DELETING TEMP DIR /tmp/tmpjb7jjrmh 404: Executing test for sam2matrix 404: ============================= 404: -404: sam2matrix -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli.sam -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ehec.sam -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli_0.50_ehec_0.50.fq -rf ecoli.fa -rf ehec.fa -o /tmp/tmpku8g69po/test_sam2matrix.tsv OK +404: sam2matrix -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli.sam -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ehec.sam -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sam2matrix/tests/ecoli_0.50_ehec_0.50.fq -rf ecoli.fa -rf ehec.fa -o /tmp/tmpjb7jjrmh/test_sam2matrix.tsv OK 404: ============================== 404: total tests: 1 404: failed tests: 0 404: successful tests: 1 404: ============================== -386/414 Test #404: app_test_sam2matrix ............................................................... Passed 0.38 sec -387/414 Test #394: app_test_insegt ................................................................... Passed 0.44 sec -403: DELETING TEMP DIR /tmp/tmp37nn_ss9 +382/414 Test #404: app_test_sam2matrix ............................................................... Passed 0.30 sec +394: DELETING TEMP DIR /tmp/tmpa88i1we6 +394: Executing test for insegt +394: ========================= +394: +394: insegt -ro /tmp/tmpa88i1we6/default_readOutput.gff -ao /tmp/tmpa88i1we6/default_annoOutput.gff -to /tmp/tmpa88i1we6/default_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +394: insegt -c 2 -ro /tmp/tmpa88i1we6/threshold-count2_readOutput.gff -ao /tmp/tmpa88i1we6/threshold-count2_annoOutput.gff -to /tmp/tmpa88i1we6/threshold-count2_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +394: insegt -n 3 -ro /tmp/tmpa88i1we6/ntuple3_readOutput.gff -ao /tmp/tmpa88i1we6/ntuple3_annoOutput.gff -to /tmp/tmpa88i1we6/ntuple3_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +394: insegt -m -ro /tmp/tmpa88i1we6/max-tuple_readOutput.gff -ao /tmp/tmpa88i1we6/max-tuple_annoOutput.gff -to /tmp/tmpa88i1we6/max-tuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +394: insegt -e -ro /tmp/tmpa88i1we6/exact-ntuple_readOutput.gff -ao /tmp/tmpa88i1we6/exact-ntuple_annoOutput.gff -to /tmp/tmpa88i1we6/exact-ntuple_tupleOutput.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/alignments.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/insegt/tests/annotations.gff OK +394: ============================== +394: total tests: 5 +394: failed tests: 0 +394: successful tests: 5 +394: ============================== +383/414 Test #394: app_test_insegt ................................................................... Passed 0.66 sec +403: DELETING TEMP DIR /tmp/tmpun16ggli 403: Executing test for sak 403: ====================== 403: -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -o /tmp/tmp37nn_ss9/adeno.all.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -o /tmp/tmpun16ggli/adeno.all.fa 403: OK -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -o /tmp/tmp37nn_ss9/adeno.seq1.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -o /tmp/tmpun16ggli/adeno.seq1.fa 403: OK -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -o /tmp/tmp37nn_ss9/adeno.seq1-2.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -o /tmp/tmpun16ggli/adeno.seq1-2.fa 403: OK -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 3 -o /tmp/tmp37nn_ss9/adeno.seq3.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 3 -o /tmp/tmpun16ggli/adeno.seq3.fa 403: OK -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -sn gi|9626621 -o /tmp/tmp37nn_ss9/adeno.sn.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -sn gi|9626621 -o /tmp/tmpun16ggli/adeno.sn.fa 403: OK -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -i 5-25 -o /tmp/tmp37nn_ss9/adeno.s1i5-25.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -i 5-25 -o /tmp/tmpun16ggli/adeno.s1i5-25.fa 403: OK -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -i 5-25 -o /tmp/tmp37nn_ss9/adeno.s1-2i5-25.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -ss 1-2 -i 5-25 -o /tmp/tmpun16ggli/adeno.s1-2i5-25.fa 403: OK -403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -rc -o /tmp/tmp37nn_ss9/adeno.s1rc.fa +403: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/sak /build/reproducible-path/seqan2-2.4.0+dfsg/apps/sak/tests/adeno.fa -s 1 -rc -o /tmp/tmpun16ggli/adeno.s1rc.fa 403: OK 403: ============================== 403: total tests: 8 403: failed tests: 0 403: successful tests: 8 403: ============================== +384/414 Test #403: app_test_sak ...................................................................... Passed 0.59 sec 84: test_parallel_thread_pool_join OK -388/414 Test #403: app_test_sak ...................................................................... Passed 0.48 sec -405: DELETING TEMP DIR /tmp/tmpfgesrw8c +414: DELETING TEMP DIR /tmp/tmpixhnvph9 +414: Executing test for Yara +414: ============================== +414: +414: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_indexer /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-genome.fa -o /tmp/tmpixhnvph9/adeno-genome OK +414: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_mapper /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/gold/adeno-genome /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-reads_1.fa -o /tmp/tmpixhnvph9/adeno-reads_1.t1.sam --threads 1 OK +414: ============================== +414: total tests: 2 +414: failed tests: 0 +414: successful tests: 2 +414: ============================== +106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +385/414 Test #414: app_test_yara ..................................................................... Passed 0.61 sec +115: VStreamTest_Compression type parameter seqan::Tag OK +115: VStreamTest_Compression type parameter seqan::Tag OK +115: VStreamTest_AutoDetection type parameter seqan::Tag OK +115: VStreamTest_AutoDetection type parameter seqan::Tag OK +115: VStreamTest_AutoDetection type parameter seqan::Tag OK +115: VStreamTest_AutoDetection type parameter seqan::Tag OK +115: WriteTest_StdString type parameter seqan::String > OK +115: InputStreamTest_Open type parameter std::basic_fstream > OK +115: InputStreamTest_Open type parameter std::basic_ifstream > OK +405: DELETING TEMP DIR /tmp/tmpizhfupi1 405: Executing test for samcat 405: ========================= 405: -405: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmpfgesrw8c/ex1_merged.sam +405: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmpizhfupi1/ex1_merged.sam 405: OK -405: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmpfgesrw8c/ex1_merged.bam +405: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/samcat /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a1.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a2.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/samcat/tests/ex1_a3.sam -o /tmp/tmpizhfupi1/ex1_merged.bam 405: OK 405: ============================== 405: total tests: 2 405: failed tests: 0 405: successful tests: 2 405: ============================== -389/414 Test #405: app_test_samcat ................................................................... Passed 0.56 sec -67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK -413: DELETING TEMP DIR /tmp/tmp2iort1vu +362: Return code was 0. +362: Loading files "/build/reproducible-path/seqan2-2.4.0+dfsg/demos/tutorial/sequences_in_depth/assignment_exact_generous_solution.cpp.stdout", "None". +362: Standard output was as expected. +362: Standard error was as expected. +413: DELETING TEMP DIR /tmp/tmpw1byc56b +66: IndexTest_OpenSave type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK 413: Executing test for tree_recomb 413: ============================== 413: -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2iort1vu/example1.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.dot OK -413: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2iort1vu/example1.nj.dot OK -413: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2iort1vu/example1.min.dot OK -413: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2iort1vu/example1.max.dot OK -413: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2iort1vu/example1.wavg.dot OK -413: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.nj.dot OK -413: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.min.dot OK -413: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.max.dot OK -413: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.avg.dot OK -413: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.wavg.dot OK -413: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.nj.dot OK -413: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.min.dot OK -413: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.max.dot OK -413: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.avg.dot OK -413: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.wavg.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2iort1vu/example1.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmp2iort1vu/example1.newick OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmp2iort1vu/example2.newick OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.dot OK -413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmp2iort1vu/example3.newick OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpw1byc56b/example1.dot OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.dot OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.dot OK +413: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpw1byc56b/example1.nj.dot OK +413: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpw1byc56b/example1.min.dot OK +413: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpw1byc56b/example1.max.dot OK +413: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpw1byc56b/example1.wavg.dot OK +413: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.nj.dot OK +413: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.min.dot OK +413: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.max.dot OK +413: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.avg.dot OK +413: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.wavg.dot OK +413: tree_recomb -b nj -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.nj.dot OK +413: tree_recomb -b min -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.min.dot OK +413: tree_recomb -b max -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.max.dot OK +413: tree_recomb -b avg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.avg.dot OK +413: tree_recomb -b wavg -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.wavg.dot OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpw1byc56b/example1.dot OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example1.dist -o /tmp/tmpw1byc56b/example1.newick OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.dot OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example2.dist -o /tmp/tmpw1byc56b/example2.newick OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.dot OK +413: tree_recomb -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/tree_recon/tests/example3.dist -o /tmp/tmpw1byc56b/example3.newick OK 413: ============================== 413: total tests: 23 413: failed tests: 0 413: successful tests: 23 413: ============================== -393: DELETING TEMP DIR /tmp/tmpd3qsulw0 +66: ************************************** +66: Total Tests: 28 +66: Skipped: 0 +66: Errors: 0 +66: ************************************** +386/414 Test #362: test_demo_tutorial_sequences_in_depth_assignment_exact_generous_solution .......... Passed 1.33 sec +67: LFTest_IsSentinel type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +387/414 Test #66: test_test_index_base .............................................................. Passed 4.80 sec +388/414 Test #413: app_test_tree_recon ............................................................... Passed 0.86 sec +389/414 Test #405: app_test_samcat ................................................................... Passed 0.92 sec +393: DELETING TEMP DIR /tmp/tmp4rz8sx6w 393: Executing test for gustaf 393: =============================== 393: -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -o /tmp/tmpd3qsulw0/adeno_modified_reads_joinedMates.fa -rc OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmpd3qsulw0/reads_simulated_joined_rc.fa -rc OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmpd3qsulw0/reads_simulated_joined.fa OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpd3qsulw0/reads_simulated_mates1_rc.fa -o /tmp/tmpd3qsulw0/reads_simulated_mates2_rc.fa -rc OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmpd3qsulw0/reads_simulated_mates1.fa -o /tmp/tmpd3qsulw0/reads_simulated_mates2.fa OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpd3qsulw0/st2_l100.gff -vcf /tmp/tmpd3qsulw0/st2_l100.vcf OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpd3qsulw0/st1_l30.gff -vcf /tmp/tmpd3qsulw0/st1_l30.vcf -st 1 -l 30 OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar.gff -gff /tmp/tmpd3qsulw0/st1_l30_m.gff -vcf /tmp/tmpd3qsulw0/st1_l30_m.vcf -st 1 OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpd3qsulw0/st1_l30_ith5.gff -vcf /tmp/tmpd3qsulw0/st1_l30_ith5.vcf -st 1 -l 30 -ith 5 -bth 5 OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmpd3qsulw0/st1_l30_gth3.gff -vcf /tmp/tmpd3qsulw0/st1_l30_gth3.vcf -st 1 -l 30 -gth 3 OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar_joinedMates_l30.gff -gff /tmp/tmpd3qsulw0/pairedEnd_st1_l30.gff -vcf /tmp/tmpd3qsulw0/pairedEnd_st1_l30.vcf -st 1 -mst 1 -ll 1000 -le 100 -rc OK -393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/read_reference2.fa -gff /tmp/tmpd3qsulw0/reference2_st1_l30.gff -vcf /tmp/tmpd3qsulw0/reference2_st1_l30.vcf -st 1 -l 30 OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -o /tmp/tmp4rz8sx6w/adeno_modified_reads_joinedMates.fa -rc OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmp4rz8sx6w/reads_simulated_joined_rc.fa -rc OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates1_gold.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_mates2_gold.fa -o /tmp/tmp4rz8sx6w/reads_simulated_joined.fa OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmp4rz8sx6w/reads_simulated_mates1_rc.fa -o /tmp/tmp4rz8sx6w/reads_simulated_mates2_rc.fa -rc OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/reads_simulated_joined_gold.fa -o /tmp/tmp4rz8sx6w/reads_simulated_mates1.fa -o /tmp/tmp4rz8sx6w/reads_simulated_mates2.fa OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmp4rz8sx6w/st2_l100.gff -vcf /tmp/tmp4rz8sx6w/st2_l100.vcf OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmp4rz8sx6w/st1_l30.gff -vcf /tmp/tmp4rz8sx6w/st1_l30.vcf -st 1 -l 30 OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar.gff -gff /tmp/tmp4rz8sx6w/st1_l30_m.gff -vcf /tmp/tmp4rz8sx6w/st1_l30_m.vcf -st 1 OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmp4rz8sx6w/st1_l30_ith5.gff -vcf /tmp/tmp4rz8sx6w/st1_l30_ith5.vcf -st 1 -l 30 -ith 5 -bth 5 OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads.fa -gff /tmp/tmp4rz8sx6w/st1_l30_gth3.gff -vcf /tmp/tmp4rz8sx6w/st1_l30_gth3.vcf -st 1 -l 30 -gth 3 OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno_modified_reads_mates2.fa -m /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/stellar_joinedMates_l30.gff -gff /tmp/tmp4rz8sx6w/pairedEnd_st1_l30.gff -vcf /tmp/tmp4rz8sx6w/pairedEnd_st1_l30.vcf -st 1 -mst 1 -ll 1000 -le 100 -rc OK +393: gustaf /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/adeno.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/gustaf/tests/read_reference2.fa -gff /tmp/tmp4rz8sx6w/reference2_st1_l30.gff -vcf /tmp/tmp4rz8sx6w/reference2_st1_l30.vcf -st 1 -l 30 OK 393: ============================== 393: total tests: 12 393: failed tests: 0 393: successful tests: 12 393: ============================== -414: DELETING TEMP DIR /tmp/tmpcigzgy0_ -390/414 Test #393: app_test_gustaf ................................................................... Passed 0.71 sec -391/414 Test #413: app_test_tree_recon ............................................................... Passed 0.60 sec -414: Executing test for Yara -414: ============================== -414: -414: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_indexer /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-genome.fa -o /tmp/tmpcigzgy0_/adeno-genome OK -414: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_mapper /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/gold/adeno-genome /build/reproducible-path/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-reads_1.fa -o /tmp/tmpcigzgy0_/adeno-reads_1.t1.sam --threads 1 OK -414: ============================== -414: total tests: 2 -414: failed tests: 0 -414: successful tests: 2 -414: ============================== -392/414 Test #414: app_test_yara ..................................................................... Passed 0.64 sec -396: DELETING TEMP DIR /tmp/tmpk3xq3k1y +396: DELETING TEMP DIR /tmp/tmpmlyrtx6c 396: Executing test for roi_intersect 396: ================================ 396: -396: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_mprojection_ss.roi OK -396: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_mprojection.roi OK -396: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_mprojection_ss.roi OK -396: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_mprojection.roi OK -396: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_mprojection_ss.roi OK -396: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_mprojection.roi OK -396: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_munion_ss.roi OK -396: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_munion.roi OK -396: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_munion_ss.roi OK -396: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_munion.roi OK -396: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_munion_ss.roi OK -396: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_munion.roi OK -396: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_mdifference_ss.roi OK -396: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_mdifference.roi OK -396: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_mdifference_ss.roi OK -396: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_mdifference.roi OK -396: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_mdifference_ss.roi OK -396: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_mdifference.roi OK -396: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_mintersection_ss.roi OK -396: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpk3xq3k1y/out_small_bed_mintersection.roi OK -396: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_mintersection_ss.roi OK -396: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpk3xq3k1y/out_small_gff_mintersection.roi OK -396: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_mintersection_ss.roi OK -396: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpk3xq3k1y/out_small_gtf_mintersection.roi OK -396: bam2roi --strand-specific -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmpk3xq3k1y/out_mrna_2l_ss.roi OK -396: bam2roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmpk3xq3k1y/out_mrna_2l.roi OK +396: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_mprojection_ss.roi OK +396: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_mprojection.roi OK +396: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_mprojection_ss.roi OK +396: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_mprojection.roi OK +396: roi_feature_projection -m projection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_mprojection_ss.roi OK +396: roi_feature_projection -m projection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_mprojection.roi OK +396: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_munion_ss.roi OK +396: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_munion.roi OK +396: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_munion_ss.roi OK +396: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_munion.roi OK +396: roi_feature_projection -m union -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_munion_ss.roi OK +396: roi_feature_projection -m union -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_munion.roi OK +396: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_mdifference_ss.roi OK +396: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_mdifference.roi OK +396: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_mdifference_ss.roi OK +396: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_mdifference.roi OK +396: roi_feature_projection -m difference -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_mdifference_ss.roi OK +396: roi_feature_projection -m difference -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_mdifference.roi OK +396: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_mintersection_ss.roi OK +396: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.bed -or /tmp/tmpmlyrtx6c/out_small_bed_mintersection.roi OK +396: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_mintersection_ss.roi OK +396: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gff -or /tmp/tmpmlyrtx6c/out_small_gff_mintersection.roi OK +396: roi_feature_projection -m intersection -ss -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_mintersection_ss.roi OK +396: roi_feature_projection -m intersection -ir /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/small.gtf -or /tmp/tmpmlyrtx6c/out_small_gtf_mintersection.roi OK +396: bam2roi --strand-specific -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmpmlyrtx6c/out_mrna_2l_ss.roi OK +396: bam2roi -if /build/reproducible-path/seqan2-2.4.0+dfsg/apps/ngs_roi/tests/micro_rna_sorted_2l.bam -of /tmp/tmpmlyrtx6c/out_mrna_2l.roi OK 396: ============================== 396: total tests: 26 396: failed tests: 0 396: successful tests: 26 396: ============================== -393/414 Test #396: app_test_ngs_roi .................................................................. Passed 0.80 sec -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +390/414 Test #393: app_test_gustaf ................................................................... Passed 1.13 sec +391/414 Test #396: app_test_ngs_roi .................................................................. Passed 1.11 sec 397: Executing test for pair_align 397: ============================= 397: -397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.fa OK -397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.fa OK -397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.fa OK -397: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.protein.fa OK -397: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.protein.fa OK -397: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.protein.fa OK -397: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.mnw.fa OK -397: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.mgotoh.fa OK -397: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.msw.fa OK -397: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.mlcs.fa OK -397: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.mnw.fa OK -397: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.mgotoh.fa OK -397: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.msw.fa OK -397: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.mlcs.fa OK -397: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.mnw.fa OK -397: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.mgotoh.fa OK -397: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.msw.fa OK -397: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.mlcs.fa OK -397: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.g-20.fa OK -397: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.e-5.fa OK -397: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.ms10.fa OK -397: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.mm-8.fa OK -397: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.g-20.fa OK -397: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.e-5.fa OK -397: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.ms10.fa OK -397: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.mm-8.fa OK -397: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.g-20.fa OK -397: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.e-5.fa OK -397: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.ms10.fa OK -397: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.mm-8.fa OK -397: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.maVTML200.fa OK -397: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.maVTML200.fa OK -397: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.maVTML200.fa OK -397: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.lo5.fa OK -397: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.hi5.fa OK -397: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.lo5.fa OK -397: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.hi5.fa OK -397: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.lo5.fa OK -397: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.hi5.fa OK -397: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.cffff.fa OK -397: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.ctttt.fa OK -397: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.cffft.fa OK -397: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.cfftf.fa OK -397: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.cftff.fa OK -397: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.ctfff.fa OK -397: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.cfftt.fa OK -397: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.cfttf.fa OK -397: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.cttff.fa OK -397: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmp_sdpq1z1/1aab.ctfft.fa OK -397: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.cffff.fa OK -397: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.ctttt.fa OK -397: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.cffft.fa OK -397: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.cfftf.fa OK -397: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.cftff.fa OK -397: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.ctfff.fa OK -397: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.cfftt.fa OK -397: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.cfttf.fa OK -397: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.cttff.fa OK -397: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmp_sdpq1z1/1ad2.ctfft.fa OK -397: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.cffff.fa OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -397: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.ctttt.faDELETING TEMP DIR /tmp/tmp_sdpq1z1 +397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.fa OK +397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.fa OK +397: pair_align -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.fa OK +397: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.protein.fa OK +397: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.protein.fa OK +397: pair_align -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.protein.fa OK +397: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.mnw.fa OK +397: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.mgotoh.fa OK +397: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.msw.fa OK +397: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.mlcs.fa OK +397: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.mnw.fa OK +397: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.mgotoh.fa OK +397: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.msw.fa OK +397: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.mlcs.fa OK +397: pair_align -m nw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.mnw.fa OK +397: pair_align -m gotoh -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.mgotoh.fa OK +397: pair_align -m sw -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.msw.fa OK +397: pair_align -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.mlcs.fa OK +397: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.g-20.fa OK +397: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.e-5.fa OK +397: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.ms10.fa OK +397: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.mm-8.fa OK +397: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.g-20.fa OK +397: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.e-5.fa OK +397: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.ms10.fa OK +397: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.mm-8.fa OK +397: pair_align -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.g-20.fa OK +397: pair_align -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.e-5.fa OK +397: pair_align -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.ms10.fa OK +397: pair_align -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.mm-8.fa OK +397: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.maVTML200.fa OK +397: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.maVTML200.fa OK +397: pair_align -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.maVTML200.fa OK +397: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.lo5.fa OK +397: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.hi5.fa OK +397: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.lo5.fa OK +397: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.hi5.fa OK +397: pair_align -lo 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.lo5.fa OK +397: pair_align -hi 5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.hi5.fa OK +397: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.cffff.fa OK +397: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.ctttt.fa OK +397: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.cffft.fa OK +397: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.cfftf.fa OK +397: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.cftff.fa OK +397: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.ctfff.fa OK +397: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.cfftt.fa OK +397: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.cfttf.fa OK +397: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.cttff.fa OK +397: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1aab.fa -o /tmp/tmpq_atd3iz/1aab.ctfft.fa OK +397: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.cffff.fa OK +397: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.ctttt.fa OK +397: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.cffft.fa OK +397: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.cfftf.fa OK +397: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.cftff.fa OK +397: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.ctfff.fa OK +397: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.cfftt.fa OK +397: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.cfttf.fa OK +397: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.cttff.fa OK +397: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/1ad2.fa -o /tmp/tmpq_atd3iz/1ad2.ctfft.fa OK +397: pair_align -c ffff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.cffff.fa OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +115: InputStreamTest_Get type parameter std::basic_fstream > OK +397: pair_align -c tttt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.ctttt.faDELETING TEMP DIR /tmp/tmpq_atd3iz 397: OK -397: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.cffft.fa OK -397: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.cfftf.fa OK -397: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.cftff.fa OK -397: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.ctfff.fa OK -397: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.cfftt.fa OK -397: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.cfttf.fa OK -397: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.cttff.fa OK -397: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmp_sdpq1z1/2trx.ctfft.fa OK -397: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1.fa -o /tmp/tmp_sdpq1z1/adeno1.fa OK -397: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2.fa -o /tmp/tmp_sdpq1z1/adeno2.fa OK -397: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3.fa -o /tmp/tmp_sdpq1z1/adeno3.fa OK -397: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1-rna.fa -o /tmp/tmp_sdpq1z1/adeno1-rna.fa OK -397: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2-rna.fa -o /tmp/tmp_sdpq1z1/adeno2-rna.fa OK -397: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3-rna.fa -o /tmp/tmp_sdpq1z1/adeno3-rna.fa OK +397: pair_align -c ffft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.cffft.fa OK +397: pair_align -c fftf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.cfftf.fa OK +397: pair_align -c ftff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.cftff.fa OK +397: pair_align -c tfff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.ctfff.fa OK +397: pair_align -c fftt -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.cfftt.fa OK +397: pair_align -c fttf -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.cfttf.fa OK +397: pair_align -c ttff -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.cttff.fa OK +397: pair_align -c tfft -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/2trx.fa -o /tmp/tmpq_atd3iz/2trx.ctfft.fa OK +397: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1.fa -o /tmp/tmpq_atd3iz/adeno1.fa OK +397: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2.fa -o /tmp/tmpq_atd3iz/adeno2.fa OK +397: pair_align -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3.fa -o /tmp/tmpq_atd3iz/adeno3.fa OK +397: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno1-rna.fa -o /tmp/tmpq_atd3iz/adeno1-rna.fa OK +397: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno2-rna.fa -o /tmp/tmpq_atd3iz/adeno2-rna.fa OK +397: pair_align -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/pair_align/tests/adeno3-rna.fa -o /tmp/tmpq_atd3iz/adeno3-rna.fa OK 397: ============================== 397: total tests: 75 397: failed tests: 0 397: successful tests: 75 397: ============================== -394/414 Test #397: app_test_pair_align ............................................................... Passed 1.22 sec -408: DELETING TEMP DIR /tmp/tmp_h1yo749 +392/414 Test #397: app_test_pair_align ............................................................... Passed 1.57 sec +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +408: DELETING TEMP DIR /tmp/tmpis35tk54 408: Executing test for seqcons2 408: =========================== 408: -408: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmp_h1yo749/alns1.overlap_consensus.fa -oa /tmp/tmp_h1yo749/alns1.overlap_consensus.sam OK -408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmp_h1yo749/alns1.nop.fa -oa /tmp/tmp_h1yo749/alns1.nop.sam OK -408: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.overlap_consensus.sam -oc /tmp/tmp_h1yo749/alns1.overlap_consensus.fa OK -408: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.pos_consensus.sam -oc /tmp/tmp_h1yo749/alns1.pos_consensus.fa OK -408: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.contig_consensus.sam -oc /tmp/tmp_h1yo749/alns1.contig_consensus.fa OK -408: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.realign.sam -oc /tmp/tmp_h1yo749/alns1.realign.fa OK -408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.nop.sam -oc /tmp/tmp_h1yo749/alns1.nop.fa OK -408: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.overlap_consensus.txt OK -408: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.pos_consensus.txt OK -408: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.contig_consensus.txt OK -408: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.realign.txt OK -408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmp_h1yo749/alns1.nop.txt OK -408: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmp_h1yo749/seqs2.align_consensus.sam -oc /tmp/tmp_h1yo749/seqs2.align_consensus.fa OK -408: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmp_h1yo749/seqs2.align_consensus.txt OK +408: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmpis35tk54/alns1.overlap_consensus.fa -oa /tmp/tmpis35tk54/alns1.overlap_consensus.sam OK +408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oc /tmp/tmpis35tk54/alns1.nop.fa -oa /tmp/tmpis35tk54/alns1.nop.sam OK +408: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.overlap_consensus.sam -oc /tmp/tmpis35tk54/alns1.overlap_consensus.fa OK +408: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.pos_consensus.sam -oc /tmp/tmpis35tk54/alns1.pos_consensus.fa OK +408: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.contig_consensus.sam -oc /tmp/tmpis35tk54/alns1.contig_consensus.fa OK +408: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.realign.sam -oc /tmp/tmpis35tk54/alns1.realign.fa OK +408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.nop.sam -oc /tmp/tmpis35tk54/alns1.nop.fa OK +408: seqcons2 -m overlap_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.overlap_consensus.txt OK +408: seqcons2 -m pos_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.pos_consensus.txt OK +408: seqcons2 -m contig_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.contig_consensus.txt OK +408: seqcons2 -m realign -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.realign.txt OK +408: seqcons2 -m nop -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/alns1.sam -oa /tmp/tmpis35tk54/alns1.nop.txt OK +408: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmpis35tk54/seqs2.align_consensus.sam -oc /tmp/tmpis35tk54/seqs2.align_consensus.fa OK +408: seqcons2 -m align_consensus -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqcons2/tests/seqs2.fa -oa /tmp/tmpis35tk54/seqs2.align_consensus.txt OK 408: ============================== 408: total tests: 14 408: failed tests: 0 408: successful tests: 14 408: ============================== -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK -395/414 Test #408: app_test_seqcons2 ................................................................. Passed 1.20 sec -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK -67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK -409: DELETING TEMP DIR /tmp/tmpevifgt83 +393/414 Test #408: app_test_seqcons2 ................................................................. Passed 2.11 sec +115: InputStreamTest_Get type parameter std::basic_ifstream > OK +115: InputStreamTest_Eof type parameter std::basic_fstream > OK +115: InputStreamTest_Eof type parameter std::basic_ifstream > OK +115: OutputStreamTest_Open type parameter std::basic_fstream > OK +115: OutputStreamTest_Open type parameter std::basic_ofstream > OK +115: OutputStreamTest_Put type parameter std::basic_fstream > OK +115: OutputStreamTest_Put type parameter std::basic_ofstream > OK +115: InputStreamTest_Tell type parameter std::basic_fstream > OK +115: InputStreamTest_Tell type parameter std::basic_ifstream > OK +115: OutputStreamTest_Tell type parameter std::basic_fstream > OK +115: OutputStreamTest_Tell type parameter std::basic_ofstream > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter seqan::String > OK +106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_LessEqualOperator type parameter std::vector, std::allocator > > OK +106: StringTestCommon_LessEqualOperator type parameter std::vector > OK +106: StringTestCommon_LessEqualOperator type parameter std::vector > OK +106: StringTestCommon_LessEqualOperator type parameter std::vector > OK +106: StringTestCommon_LessEqualOperator type parameter std::deque, std::allocator > > OK +106: StringTestCommon_LessEqualOperator type parameter std::deque > OK +106: StringTestCommon_LessEqualOperator type parameter std::deque > OK +106: StringTestCommon_LessEqualOperator type parameter std::deque > OK +106: StringTestCommon_LessEqualOperator type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +106: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +106: StringTestCommon_LessEqualOperator type parameter std::forward_list > OK +106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_LessEqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String >, 4194304u, 2u> > > OK +115: ************************************** +115: Total Tests: 213 +115: Skipped: 0 +115: Errors: 0 +115: ************************************** +394/414 Test #115: test_test_stream .................................................................. Passed 5.67 sec +84: test_parallel_thread_pool_destruct OK +84: test_parallel_enumerable_thread_local_construct OK +84: test_parallel_enumerable_thread_local_local OK +84: test_parallel_enumerable_thread_local_enumerate OK +84: test_parallel_enumerable_thread_local_combine_unary OK +84: test_parallel_enumerable_thread_local_combine_binary OK +84: ************************************** +84: Total Tests: 29 +84: Skipped: 0 +84: Errors: 0 +84: ************************************** +395/414 Test #84: test_test_parallel ................................................................ Passed 6.21 sec +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: CSATest_IndexSA type parameter seqan::Index >, seqan::FMIndex > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +407: Executing test for seqan_tcoffee +407: ================================ +407: +407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.fasta OK +407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.fasta OK +407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.fasta OK +407: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.protein.fasta OK +407: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.protein.fasta OK +407: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.protein.fasta OK +407: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.mglobal.fasta OK +407: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.mlocal.fasta OK +407: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.moverlap.fasta OK +407: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.mlcs.fasta OK +407: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.mglobal.mlocal.fasta OK +407: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.mlocal.moverlap.fasta OK +407: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.mglobal.fasta OK +407: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.mlocal.fasta OK +407: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.moverlap.fasta OK +407: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.mlcs.fasta OK +407: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.mglobal.mlocal.fasta OK +407: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.mlocal.moverlap.fasta OK +407: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.mglobal.fasta OK +407: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.mlocal.fasta OK +407: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.moverlap.fasta OK +407: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.mlcs.fasta OK +407: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.mglobal.mlocal.fasta OK +407: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.mlocal.moverlap.fasta OK +407: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.g-20.fasta OK +407: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.e-5.fasta OK +407: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.ms10.fasta OK +407: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.mm-8.fasta OK +407: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.g-20.fasta OK +407: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.e-5.fasta OK +407: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.ms10.fasta OK +407: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.mm-8.fasta OK +407: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.g-20.fasta OK +407: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.e-5.fasta OK +407: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.ms10.fasta OK +407: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.mm-8.fasta OK +407: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.maVTML200.fasta OK +407: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.maVTML200.fasta OK +407: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.maVTML200.fasta OK +407: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.u.fasta OK +407: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.u.fasta OK +407: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.u.fasta OK +407: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.bnj.fasta OK +407: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.bmin.fasta OK +407: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.bmax.fasta OK +407: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.bavg.fasta OK +407: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmpg5e9xm96/1aab.bwavg.fasta OK +407: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.bnj.fasta OK +407: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.bmin.fasta OK +407: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.bmax.fasta OK +407: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.bavg.fasta OK +407: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmpg5e9xm96/1ad2.bwavg.fasta OK +407: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.bnj.fasta OK +67: CSATest_IndexSA type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +409: DELETING TEMP DIR /tmp/tmpp_qlgrc6 409: Executing test for sgip 409: ========================= 409: @@ -313532,379 +312213,193 @@ 409: failed tests: 0 409: successful tests: 9 409: ============================== -396/414 Test #409: app_test_sgip ..................................................................... Passed 1.76 sec -67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK -67: ************************************** -67: Total Tests: 27 -67: Skipped: 0 -67: Errors: 0 -67: ************************************** -397/414 Test #67: test_test_index_fm ................................................................ Passed 5.57 sec -407: Executing test for seqan_tcoffee -407: ================================ -407: -407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.fasta OK -407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.fasta OK -407: seqan_tcoffee -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.fasta OK -407: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.protein.fasta OK -407: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.protein.fasta OK -407: seqan_tcoffee -a protein -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.protein.fasta OK -407: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.mglobal.fasta OK -407: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.mlocal.fasta OK -407: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.moverlap.fasta OK -407: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.mlcs.fasta OK -407: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.mglobal.mlocal.fasta OK -407: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.mlocal.moverlap.fasta OK -407: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.mglobal.fasta OK -407: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.mlocal.fasta OK -407: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.moverlap.fasta OK -407: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.mlcs.fasta OK -407: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.mglobal.mlocal.fasta OK -407: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.mlocal.moverlap.fasta OK -407: seqan_tcoffee -m global -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.mglobal.fasta OK -407: seqan_tcoffee -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.mlocal.fasta OK -407: seqan_tcoffee -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.moverlap.fasta OK -407: seqan_tcoffee -m lcs -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.mlcs.fasta OK -407: seqan_tcoffee -m global -m local -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.mglobal.mlocal.fasta OK -407: seqan_tcoffee -m local -m overlap -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.mlocal.moverlap.fasta OK -407: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.g-20.fasta OK -407: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.e-5.fasta OK -407: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.ms10.fasta OK -407: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.mm-8.fasta OK -407: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.g-20.fasta OK -407: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.e-5.fasta OK -407: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.ms10.fasta OK -407: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.mm-8.fasta OK -407: seqan_tcoffee -g -20 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.g-20.fasta OK -407: seqan_tcoffee -e -5 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.e-5.fasta OK -407: seqan_tcoffee -ms 10 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.ms10.fasta OK -407: seqan_tcoffee -mm -8 -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.mm-8.fasta OK -407: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.maVTML200.fasta OK -407: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.maVTML200.fasta OK -407: seqan_tcoffee -ma /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/VTML200I -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.maVTML200.fasta OK -407: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.u.fasta OK -407: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.u.fasta OK -407: seqan_tcoffee -u /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.newick -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.u.fasta OK -407: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.bnj.fasta OK -407: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.bmin.fasta OK -407: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.bmax.fasta OK -407: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.bavg.fasta OK -407: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fa -o /tmp/tmppcoi653i/1aab.bwavg.fasta OK -407: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.bnj.fasta OK -407: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.bmin.fasta OK -407: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.bmax.fasta OK -407: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.bavg.fasta OK -407: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fa -o /tmp/tmppcoi653i/1ad2.bwavg.fasta OK -407: seqan_tcoffee -b nj -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.bnj.fasta OK -84: test_parallel_thread_pool_destruct OK -84: test_parallel_enumerable_thread_local_construct OK -84: test_parallel_enumerable_thread_local_local OK -84: test_parallel_enumerable_thread_local_enumerate OK -84: test_parallel_enumerable_thread_local_combine_unary OK -84: test_parallel_enumerable_thread_local_combine_binary OK -84: ************************************** -84: Total Tests: 29 -84: Skipped: 0 -84: Errors: 0 -84: ************************************** -398/414 Test #84: test_test_parallel ................................................................ Passed 6.02 sec -402: Executing test for razers3 -402: =========================== -402: -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-tc0.razers OK -402: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-ng-tc0.razers OK -402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-r-tc0.razers OK -402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-f-tc0.razers OK -402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i90-tc0.razers OK -402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i91-tc0.razers OK -402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i92-tc0.razers OK -402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i93-tc0.razers OK -402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i94-tc0.razers OK -402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i95-tc0.razers OK -402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i96-tc0.razers OK -402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i97-tc0.razers OK -402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i98-tc0.razers OK -402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i99-tc0.razers OK -402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-i100-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-of0-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-of1-tc0.fa OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-of2-tc0.eland OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-of3-tc0.gff OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-of4-tc0.sam OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-of5-tc0.afg OK -402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-so0-tc0.razers OK -402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads36_1-so1-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-tc0.razers OK -402: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-ng-tc0.razers OK -402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-r-tc0.razers OK -402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-f-tc0.razers OK -402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i90-tc0.razers OK -402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i91-tc0.razers OK -402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i92-tc0.razers OK -402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i93-tc0.razers OK -402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i94-tc0.razers OK -402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i95-tc0.razers OK -402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i96-tc0.razers OK -401: Executing test for razers3 -401: =========================== -401: -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-tc1.razers OK -401: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-ng-tc1.razers OK -401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-r-tc1.razers OK -401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-f-tc1.razers OK -401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i90-tc1.razers OK -401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i91-tc1.razers OK -401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i92-tc1.razers OK -401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i93-tc1.razers OK -401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i94-tc1.razers OK -401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i95-tc1.razers OK -401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i96-tc1.razers OK -401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i97-tc1.razers OK -401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i98-tc1.razers OK -401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i99-tc1.razers OK -401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-i100-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-of0-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-of1-tc1.fa OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-of2-tc1.eland OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-of3-tc1.gff OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-of4-tc1.sam OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-of5-tc1.afg OK -401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-so0-tc1.razers OK -401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads36_1-so1-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-tc1.razers OK -401: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-ng-tc1.razers OK -401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-r-tc1.razers OK -401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-f-tc1.razers OK -401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i90-tc1.razers OK -401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i91-tc1.razers OK -401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i92-tc1.razers OK -401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i93-tc1.razers OK -401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i94-tc1.razers OK -401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i95-tc1.razers OK -401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i96-tc1.razers OK -407: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.bmin.fastaDELETING TEMP DIR /tmp/tmppcoi653i +396/414 Test #409: app_test_sgip ..................................................................... Passed 5.30 sec +407: seqan_tcoffee -b min -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.bmin.fastaDELETING TEMP DIR /tmp/tmpg5e9xm96 407: OK -407: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.bmax.fasta OK -407: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.bavg.fasta OK -407: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmppcoi653i/2trx.bwavg.fasta OK +407: seqan_tcoffee -b max -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.bmax.fasta OK +407: seqan_tcoffee -b avg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.bavg.fasta OK +407: seqan_tcoffee -b wavg -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fa -o /tmp/tmpg5e9xm96/2trx.bwavg.fasta OK 407: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1aab.fasta OK 407: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/1ad2.fasta OK 407: seqan_tcoffee -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/2trx.fasta OK -407: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2.fa -o /tmp/tmppcoi653i/adeno2.fasta OK -407: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3.fa -o /tmp/tmppcoi653i/adeno3.fasta OK -407: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4.fa -o /tmp/tmppcoi653i/adeno4.fasta OK -407: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2-rna.fa -o /tmp/tmppcoi653i/adeno2-rna.fasta OK -407: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3-rna.fa -o /tmp/tmppcoi653i/adeno3-rna.fasta OK -407: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4-rna.fa -o /tmp/tmppcoi653i/adeno4-rna.fasta OK +407: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2.fa -o /tmp/tmpg5e9xm96/adeno2.fasta OK +407: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3.fa -o /tmp/tmpg5e9xm96/adeno3.fasta OK +407: seqan_tcoffee -a dna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4.fa -o /tmp/tmpg5e9xm96/adeno4.fasta OK +407: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno2-rna.fa -o /tmp/tmpg5e9xm96/adeno2-rna.fasta OK +407: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno3-rna.fa -o /tmp/tmpg5e9xm96/adeno3-rna.fasta OK +407: seqan_tcoffee -a rna -s /build/reproducible-path/seqan2-2.4.0+dfsg/apps/seqan_tcoffee/tests/adeno4-rna.fa -o /tmp/tmpg5e9xm96/adeno4-rna.fasta OK 407: ============================== 407: total tests: 66 407: failed tests: 0 407: successful tests: 66 407: ============================== -399/414 Test #407: app_test_seqan_tcoffee ............................................................ Passed 2.75 sec -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::Owner > >, seqan::FMIndex > > OK +402: Executing test for razers3 +402: =========================== +402: +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-tc0.razers OK +402: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-ng-tc0.razers OK +402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-r-tc0.razers OK +402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-f-tc0.razers OK +402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i90-tc0.razers OK +402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i91-tc0.razers OK +402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i92-tc0.razers OK +402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i93-tc0.razers OK +402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i94-tc0.razers OK +402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i95-tc0.razers OK +402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i96-tc0.razers OK +402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i97-tc0.razers OK +402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i98-tc0.razers OK +402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i99-tc0.razers OK +402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-i100-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-of0-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-of1-tc0.fa OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-of2-tc0.eland OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-of3-tc0.gff OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-of4-tc0.sam OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-of5-tc0.afg OK +402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-so0-tc0.razers OK +402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads36_1-so1-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-tc0.razers OK +402: razers3 -tc 0 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-ng-tc0.razers OK +402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-r-tc0.razers OK +402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-f-tc0.razers OK +402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i90-tc0.razers OK +402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i91-tc0.razers OK +402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i92-tc0.razers OK +402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i93-tc0.razers OK +402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i94-tc0.razers OK +402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i95-tc0.razers OK +402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i96-tc0.razers OK +397/414 Test #407: app_test_seqan_tcoffee ............................................................ Passed 5.54 sec +106: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::FMIndex > > OK +67: CSATest_BeginEnd type parameter seqan::Index >, seqan::FMIndex > > OK +401: Executing test for razers3 +401: =========================== +401: +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-tc1.razers OK +401: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-ng-tc1.razers OK +401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-r-tc1.razers OK +401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-f-tc1.razers OK +401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i90-tc1.razers OK +401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i91-tc1.razers OK +401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i92-tc1.razers OK +401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i93-tc1.razers OK +401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i94-tc1.razers OK +401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i95-tc1.razers OK +401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i96-tc1.razers OK +401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i97-tc1.razers OK +401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i98-tc1.razers OK +401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i99-tc1.razers OK +401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-i100-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-of0-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-of1-tc1.fa OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-of2-tc1.eland OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-of3-tc1.gff OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-of4-tc1.sam OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-of5-tc1.afg OK +401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-so0-tc1.razers OK +401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads36_1-so1-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-tc1.razers OK +401: razers3 -tc 1 -ng /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-ng-tc1.razers OK +401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-r-tc1.razers OK +401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-f-tc1.razers OK +401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i90-tc1.razers OK +401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i91-tc1.razers OK +401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i92-tc1.razers OK +401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i93-tc1.razers OK +401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i94-tc1.razers OK +401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i95-tc1.razers OK +401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i96-tc1.razers OK +67: CSATest_BeginEnd type parameter seqan::Index, seqan::Alloc >, seqan::Owner > >, seqan::FMIndex > > OK +67: ************************************** +67: Total Tests: 27 +67: Skipped: 0 +67: Errors: 0 +67: ************************************** +398/414 Test #67: test_test_index_fm ................................................................ Passed 10.40 sec +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_GreaterOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_GreaterOperator type parameter std::vector, std::allocator > > OK +106: StringTestCommon_GreaterOperator type parameter std::vector > OK +106: StringTestCommon_GreaterOperator type parameter std::vector > OK +106: StringTestCommon_GreaterOperator type parameter std::vector > OK +106: StringTestCommon_GreaterOperator type parameter std::deque, std::allocator > > OK +106: StringTestCommon_GreaterOperator type parameter std::deque > OK +106: StringTestCommon_GreaterOperator type parameter std::deque > OK +106: StringTestCommon_GreaterOperator type parameter std::deque > OK +106: StringTestCommon_GreaterOperator type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +106: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +106: StringTestCommon_GreaterOperator type parameter std::forward_list > OK +106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_GreaterOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK 400: Executing test for razers 400: ========================= 400: -400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id.razers OK -400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-r.razers OK -400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-f.razers OK -400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i90.razers OK -400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i91.razers OK -400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i92.razers OK -400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i93.razers OK -400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i94.razers OK -400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i95.razers OK -400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i96.razers OK -400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i97.razers OK -400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i98.razers OK -400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i99.razers OK -400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-i100.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-of0.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-of1.fa OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-of2.eland OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-of3.gff OK -400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-so0.razers OK -400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads36_1-id-so1.razers OK -400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id.razers OK -400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-r.razers OK -400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-f.razers OK -400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i90.razers OK -400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i91.razers OK -400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i92.razers OK -400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i93.razers OK -400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i94.razers OK -400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i95.razers OK -400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i96.razers OK -400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i97.razers OK -411: Executing test for splazers -411: ========================= -411: -411: splazers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_default.out OK -411: splazers -sm 16 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml16_ep0_es0.out OK -411: splazers -sm 16 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml16_ep0_es1.out OK -411: splazers -sm 16 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml16_ep0_es2.out OK -411: splazers -sm 16 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml16_ep1_es0.out OK -411: splazers -sm 16 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml16_ep1_es1.out OK -411: splazers -sm 16 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml16_ep1_es2.out OK -411: splazers -sm 17 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml17_ep0_es0.out OK -411: splazers -sm 17 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml17_ep0_es1.out OK -411: splazers -sm 17 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml17_ep0_es2.out OK -411: splazers -sm 17 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml17_ep1_es0.out OK -411: splazers -sm 17 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml17_ep1_es1.out OK -411: splazers -sm 17 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml17_ep1_es2.out OK -411: splazers -sm 18 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml18_ep0_es0.out OK -411: splazers -sm 18 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml18_ep0_es1.out OK -411: splazers -sm 18 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml18_ep0_es2.out OK -411: splazers -sm 18 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml18_ep1_es0.out OK -411: splazers -sm 18 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml18_ep1_es1.out OK -411: splazers -sm 18 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml18_ep1_es2.out OK -411: splazers -sm 19 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml19_ep0_es0.out OK -411: splazers -sm 19 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml19_ep0_es1.out OK -411: splazers -sm 19 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml19_ep0_es2.out OK -411: splazers -sm 19 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml19_ep1_es0.out OK -411: splazers -sm 19 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml19_ep1_es1.out OK -411: splazers -sm 19 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml19_ep1_es2.out OK -411: splazers -sm 20 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20_ep0_es0.out OK -411: splazers -sm 20 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20_ep0_es1.out OK -411: splazers -sm 20 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20_ep0_es2.out OK -411: splazers -sm 20 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20_ep1_es0.out OK -411: splazers -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20_ep1_es1.out OK -411: splazers -sm 20 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20_ep1_es2.out OK -411: splazers -sm 21 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml21_ep0_es0.out OK -401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i97-tc1.razers OK -401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i98-tc1.razers OK -401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i99-tc1.razers OK -401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-i100-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-of0-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-of1-tc1.fa OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-of2-tc1.eland OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-of3-tc1.gff OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-of4-tc1.sam OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-of5-tc1.afg OK -401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-so0-tc1.razers OK -401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmp1d_6hx3x/se-adeno-reads100_1-so1-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-tc1.razers OK -401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-r-tc1.razers OK -401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-f-tc1.razers OK -401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i90-tc1.razers OK -401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i91-tc1.razers OK -401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i92-tc1.razers OK -401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i93-tc1.razers OK -401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i94-tc1.razers OK -401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i95-tc1.razers OK -401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i96-tc1.razers OK -401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i97-tc1.razers OK -401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i98-tc1.razers OK -401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i99-tc1.razers OK -401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-i100-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-of0-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-of1-tc1.fa OK -402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i97-tc0.razers OK -402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i98-tc0.razers OK -402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i99-tc0.razers OK -402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-i100-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-of0-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-of1-tc0.fa OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-of2-tc0.eland OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-of3-tc0.gff OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-of4-tc0.sam OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-of5-tc0.afg OK -402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-so0-tc0.razers OK -402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpq_iyy8_s/se-adeno-reads100_1-so1-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-tc0.razers OK -402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-r-tc0.razers OK -402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-f-tc0.razers OK -402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i90-tc0.razers OK -402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i91-tc0.razers OK -402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i92-tc0.razers OK -402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i93-tc0.razers OK -402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i94-tc0.razers OK -402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i95-tc0.razers OK -402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i96-tc0.razers OK -402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i97-tc0.razers OK -402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i98-tc0.razers OK -402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i99-tc0.razers OK -402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-i100-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-of0-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-of1-tc0.fa OK -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-of2-tc1.eland OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-of3-tc1.gff OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-of4-tc1.sam OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-of5-tc1.afg OK -401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-so0-tc1.razers OK -401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads36_2-so1-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-tc1.razers OK -401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-r-tc1.razers OK -401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-f-tc1.razers OK -401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i90-tc1.razers OK -401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i91-tc1.razers OK -401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i92-tc1.razers OK -401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i93-tc1.razers OK -401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i94-tc1.razers OK -401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i95-tc1.razers OK -401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i96-tc1.razers OK -401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i97-tc1.razers OK -401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i98-tc1.razers OK -401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i99-tc1.razers OK -401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-i100-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-of0-tc1.razers OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-of1-tc1.fa OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-of2-tc1.eland OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-of3-tc1.gff OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-of4-tc1.sam OK -401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-of5-tc1.afgDELETING TEMP DIR /tmp/tmp1d_6hx3x -401: OK -401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-so0-tc1.razers OK -401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmp1d_6hx3x/pe-adeno-reads100_2-so1-tc1.razers OK -401: ============================== -401: total tests: 92 -401: failed tests: 0 -401: successful tests: 92 -401: ============================== -400/414 Test #401: app_test_razers3 .................................................................. Passed 6.13 sec -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-of2-tc0.eland OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-of3-tc0.gff OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-of4-tc0.sam OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-of5-tc0.afg OK -402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-so0-tc0.razers OK -402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads36_2-so1-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-tc0.razers OK -402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-r-tc0.razers OK -402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-f-tc0.razers OK -402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i90-tc0.razers OK -402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i91-tc0.razers OK -402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i92-tc0.razers OK -402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i93-tc0.razers OK -402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i94-tc0.razers OK -402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i95-tc0.razers OK -402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i96-tc0.razers OK -402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i97-tc0.razers OK -402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i98-tc0.razers OK -402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i99-tc0.razers OK -402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-i100-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-of0-tc0.razers OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-of1-tc0.fa OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-of2-tc0.eland OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-of3-tc0.gff OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-of4-tc0.sam OK -402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-of5-tc0.afgDELETING TEMP DIR /tmp/tmpq_iyy8_s -402: OK -402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-so0-tc0.razers OK -402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpq_iyy8_s/pe-adeno-reads100_2-so1-tc0.razers OK -402: ============================== -402: total tests: 92 -402: failed tests: 0 -402: successful tests: 92 -402: ============================== -401/414 Test #402: app_test_razers3_sequential ....................................................... Passed 7.08 sec +400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id.razers OK +400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-r.razers OK +400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-f.razers OK +400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i90.razers OK +400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i91.razers OK +400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i92.razers OK +400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i93.razers OK +400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i94.razers OK +400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i95.razers OK +400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i96.razers OK +400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i97.razers OK +400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i98.razers OK +400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i99.razers OK +400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-i100.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-of0.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-of1.fa OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-of2.eland OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-of3.gff OK +400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-so0.razers OK +400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads36_1-id-so1.razers OK +400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id.razers OK +400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-r.razers OK +400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-f.razers OK +400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i90.razers OK +400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i91.razers OK +400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i92.razers OK +400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i93.razers OK +400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i94.razers OK +400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i95.razers OK +400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i96.razers OK +400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i97.razers OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK 27: test_bam_io_bam_file_bam_file_seek OK 27: test_bam_io_sam_file_issue_489 OK 27: test_bam_io_bam_index_save OK @@ -313914,327 +312409,1868 @@ 27: Skipped: 0 27: Errors: 0 27: ************************************** -402/414 Test #27: test_test_bam_io .................................................................. Passed 10.99 sec -68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index >, seqan::BidirectionalIndex > > > OK -411: splazers -sm 21 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml21_ep0_es1.out OK -411: splazers -sm 21 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml21_ep0_es2.out OK -411: splazers -sm 21 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml21_ep1_es0.out OK -411: splazers -sm 21 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml21_ep1_es1.out OK -411: splazers -sm 21 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml21_ep1_es2.out OK -411: splazers -sm 22 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml22_ep0_es0.out OK -411: splazers -sm 22 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml22_ep0_es1.out OK -411: splazers -sm 22 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml22_ep0_es2.out OK -411: splazers -sm 22 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml22_ep1_es0.out OK -411: splazers -sm 22 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml22_ep1_es1.out OK -411: splazers -sm 22 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml22_ep1_es2.out OK -411: splazers -sm 23 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml23_ep0_es0.out OK -411: splazers -sm 23 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml23_ep0_es1.out OK -411: splazers -sm 23 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml23_ep0_es2.out OK -411: splazers -sm 23 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml23_ep1_es0.out OK -411: splazers -sm 23 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml23_ep1_es1.out OK -411: splazers -sm 23 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml23_ep1_es2.out OK -411: splazers -sm 24 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml24_ep0_es0.out OK -411: splazers -sm 24 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml24_ep0_es1.out OK -411: splazers -sm 24 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml24_ep0_es2.out OK -411: splazers -sm 24 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml24_ep1_es0.out OK -411: splazers -sm 24 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml24_ep1_es1.out OK -411: splazers -sm 24 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml24_ep1_es2.out OK -411: splazers -sm 25 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml25_ep0_es0.out OK -411: splazers -sm 25 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml25_ep0_es1.out OK -411: splazers -sm 25 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml25_ep0_es2.out OK -411: splazers -sm 25 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml25_ep1_es0.out OK -411: splazers -sm 25 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml25_ep1_es1.out OK -411: splazers -sm 25 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml25_ep1_es2.out OK -411: splazers -r -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-r_ep1_es1.out OK -411: splazers -f -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-f_ep1_es1.out OK -411: splazers -i 90 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i90_ep1_es1.out OK -411: splazers -i 91 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i91_ep1_es1.out OK -78: test_journaled_string_tree_find_horspool OK -411: splazers -i 92 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i92_ep1_es1.outDELETING TEMP DIR /tmp/tmpm7j7ubv2 -411: OK -411: splazers -i 93 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i93_ep1_es1.out OK -411: splazers -i 94 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i94_ep1_es1.out OK -411: splazers -i 95 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i95_ep1_es1.out OK -411: splazers -i 96 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i96_ep1_es1.out OK -411: splazers -i 97 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i97_ep1_es1.out OK -411: splazers -i 98 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i98_ep1_es1.out OK -411: splazers -i 99 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-i99_ep1_es1.out OK -411: splazers -of 3 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-of3_ep1_es1.out OK -411: splazers -of 4 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-of4_ep1_es1.out OK -411: splazers -so 0 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-so0_ep1_es1.out OK -411: splazers -so 1 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpm7j7ubv2/se-adeno-reads100_1_mml20-so1_ep1_es1.out OK -411: splazers -an /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads-pe.sam -o /tmp/tmpm7j7ubv2/anchored_adeno_example100.out -ll 300 -le 90 OK -411: ============================== -411: total tests: 78 -411: failed tests: 0 -411: successful tests: 78 -411: ============================== -403/414 Test #411: app_test_splazers ................................................................. Passed 10.24 sec +399/414 Test #27: test_test_bam_io .................................................................. Passed 14.35 sec +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK +402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i97-tc0.razers OK +402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i98-tc0.razers OK +402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i99-tc0.razers OK +402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-i100-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-of0-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-of1-tc0.fa OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-of2-tc0.eland OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-of3-tc0.gff OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-of4-tc0.sam OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-of5-tc0.afg OK +402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-so0-tc0.razers OK +402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpwr_nnpr0/se-adeno-reads100_1-so1-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-tc0.razers OK +402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-r-tc0.razers OK +402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-f-tc0.razers OK +402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i90-tc0.razers OK +402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i91-tc0.razers OK +402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i92-tc0.razers OK +402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i93-tc0.razers OK +402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i94-tc0.razers OK +402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i95-tc0.razers OK +402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i96-tc0.razers OK +402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i97-tc0.razers OK +402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i98-tc0.razers OK +402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i99-tc0.razers OK +402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-i100-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-of0-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-of1-tc0.fa OK +411: Executing test for splazers +411: ========================= +411: +411: splazers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_default.out OK +411: splazers -sm 16 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml16_ep0_es0.out OK +411: splazers -sm 16 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml16_ep0_es1.out OK +411: splazers -sm 16 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml16_ep0_es2.out OK +411: splazers -sm 16 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml16_ep1_es0.out OK +411: splazers -sm 16 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml16_ep1_es1.out OK +411: splazers -sm 16 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml16_ep1_es2.out OK +411: splazers -sm 17 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml17_ep0_es0.out OK +411: splazers -sm 17 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml17_ep0_es1.out OK +411: splazers -sm 17 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml17_ep0_es2.out OK +411: splazers -sm 17 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml17_ep1_es0.out OK +411: splazers -sm 17 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml17_ep1_es1.out OK +411: splazers -sm 17 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml17_ep1_es2.out OK +411: splazers -sm 18 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml18_ep0_es0.out OK +411: splazers -sm 18 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml18_ep0_es1.out OK +411: splazers -sm 18 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml18_ep0_es2.out OK +411: splazers -sm 18 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml18_ep1_es0.out OK +411: splazers -sm 18 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml18_ep1_es1.out OK +411: splazers -sm 18 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml18_ep1_es2.out OK +411: splazers -sm 19 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml19_ep0_es0.out OK +411: splazers -sm 19 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml19_ep0_es1.out OK +411: splazers -sm 19 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml19_ep0_es2.out OK +411: splazers -sm 19 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml19_ep1_es0.out OK +411: splazers -sm 19 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml19_ep1_es1.out OK +411: splazers -sm 19 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml19_ep1_es2.out OK +411: splazers -sm 20 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20_ep0_es0.out OK +411: splazers -sm 20 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20_ep0_es1.out OK +411: splazers -sm 20 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20_ep0_es2.out OK +411: splazers -sm 20 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20_ep1_es0.out OK +411: splazers -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20_ep1_es1.out OK +411: splazers -sm 20 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20_ep1_es2.out OK +411: splazers -sm 21 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml21_ep0_es0.out OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK 68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK +401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i97-tc1.razers OK +401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i98-tc1.razers OK +401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i99-tc1.razers OK +401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-i100-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-of0-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-of1-tc1.fa OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-of2-tc1.eland OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-of3-tc1.gff OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-of4-tc1.sam OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-of5-tc1.afg OK +401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-so0-tc1.razers OK +401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa -o /tmp/tmpci1xvccy/se-adeno-reads100_1-so1-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-tc1.razers OK +401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-r-tc1.razers OK +401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-f-tc1.razers OK +401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i90-tc1.razers OK +401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i91-tc1.razers OK +401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i92-tc1.razers OK +401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i93-tc1.razers OK +401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i94-tc1.razers OK +401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i95-tc1.razers OK +401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i96-tc1.razers OK +401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i97-tc1.razers OK +401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i98-tc1.razers OK +401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i99-tc1.razers OK +401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-i100-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-of0-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-of1-tc1.fa OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter seqan::String > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::vector, std::allocator > > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::vector > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::deque, std::allocator > > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::deque > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::forward_list > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_GreaterEqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String >, 4194304u, 2u> > > OK 68: BidirectionalFMIndexTest_SearchInStringSet type parameter seqan::Index, seqan::Alloc >, seqan::BidirectionalIndex > > > OK 68: ************************************** 68: Total Tests: 12 68: Skipped: 0 68: Errors: 0 68: ************************************** -404/414 Test #68: test_test_index_bifm .............................................................. Passed 15.95 sec -410: DELETING TEMP DIR /tmp/tmp_7msyr2d +400/414 Test #68: test_test_index_bifm .............................................................. Passed 20.76 sec +106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-of2-tc1.eland OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-of3-tc1.gff OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-of4-tc1.sam OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-of5-tc1.afg OK +401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-so0-tc1.razers OK +401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads36_2-so1-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-tc1.razers OK +401: razers3 -tc 1 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-r-tc1.razers OK +401: razers3 -tc 1 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-f-tc1.razers OK +401: razers3 -tc 1 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i90-tc1.razers OK +401: razers3 -tc 1 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i91-tc1.razers OK +401: razers3 -tc 1 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i92-tc1.razers OK +401: razers3 -tc 1 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i93-tc1.razers OK +401: razers3 -tc 1 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i94-tc1.razers OK +401: razers3 -tc 1 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i95-tc1.razers OK +401: razers3 -tc 1 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i96-tc1.razers OK +401: razers3 -tc 1 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i97-tc1.razers OK +401: razers3 -tc 1 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i98-tc1.razers OK +401: razers3 -tc 1 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i99-tc1.razers OK +401: razers3 -tc 1 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-i100-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-of0-tc1.razers OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-of1-tc1.fa OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-of2-tc1.eland OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-of3-tc1.gff OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-of4-tc1.sam OK +401: razers3 -tc 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-of5-tc1.afgDELETING TEMP DIR /tmp/tmpci1xvccy +401: OK +401: razers3 -tc 1 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-so0-tc1.razers OK +401: razers3 -tc 1 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpci1xvccy/pe-adeno-reads100_2-so1-tc1.razers OK +401: ============================== +401: total tests: 92 +401: failed tests: 0 +401: successful tests: 92 +401: ============================== +106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-of2-tc0.eland OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-of3-tc0.gff OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-of4-tc0.sam OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-of5-tc0.afg OK +402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-so0-tc0.razers OK +402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads36_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads36_2-so1-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-tc0.razers OK +402: razers3 -tc 0 -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-r-tc0.razers OK +402: razers3 -tc 0 -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-f-tc0.razers OK +402: razers3 -tc 0 -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i90-tc0.razers OK +402: razers3 -tc 0 -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i91-tc0.razers OK +402: razers3 -tc 0 -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i92-tc0.razers OK +402: razers3 -tc 0 -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i93-tc0.razers OK +402: razers3 -tc 0 -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i94-tc0.razers OK +402: razers3 -tc 0 -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i95-tc0.razers OK +402: razers3 -tc 0 -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i96-tc0.razers OK +402: razers3 -tc 0 -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i97-tc0.razers OK +402: razers3 -tc 0 -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i98-tc0.razers OK +402: razers3 -tc 0 -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i99-tc0.razers OK +402: razers3 -tc 0 -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-i100-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-of0-tc0.razers OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-of1-tc0.fa OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-of2-tc0.eland OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-of3-tc0.gff OK +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-of4-tc0.sam OK +401/414 Test #401: app_test_razers3 .................................................................. Passed 18.74 sec +402: razers3 -tc 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-of5-tc0.afgDELETING TEMP DIR /tmp/tmpwr_nnpr0 +402: OK +402: razers3 -tc 0 -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-so0-tc0.razers OK +402: razers3 -tc 0 -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers3/tests/adeno-reads100_2.fa -o /tmp/tmpwr_nnpr0/pe-adeno-reads100_2-so1-tc0.razers OK +402: ============================== +402: total tests: 92 +402: failed tests: 0 +402: successful tests: 92 +402: ============================== +402/414 Test #402: app_test_razers3_sequential ....................................................... Passed 18.94 sec +106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +410: DELETING TEMP DIR /tmp/tmpf5wm7vgm 410: Executing test for snp_store 410: ========================= 410: -410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -o /tmp/tmp_7msyr2d/snps_default.vcf -id /tmp/tmp_7msyr2d/indels_default.gff OK -410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -re -o /tmp/tmp_7msyr2d/snps_realign.vcf -id /tmp/tmp_7msyr2d/indels_realign.gff OK -410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -re -oa -mp 1 -m maq -hq -o /tmp/tmp_7msyr2d/snps_realign_m1mp1oa.vcf -id /tmp/tmp_7msyr2d/indels_realign_m1mp1oa.gff OK -410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -it 2 -re -oa -mp 1 -hq -o /tmp/tmp_7msyr2d/snps_realign_m0mp1oa.vcf -id /tmp/tmp_7msyr2d/indels_realign_m0mp1oa.gff OK -410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -ipt 0.1 -osc -re -oa -hq -o /tmp/tmp_7msyr2d/snps_realign_m0mp1oa_it1ipt01.vcf -id /tmp/tmp_7msyr2d/indels_realign_m0mp1oa_it1ipt01.gff OK +410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -o /tmp/tmpf5wm7vgm/snps_default.vcf -id /tmp/tmpf5wm7vgm/indels_default.gff OK +410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -re -o /tmp/tmpf5wm7vgm/snps_realign.vcf -id /tmp/tmpf5wm7vgm/indels_realign.gff OK +410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -re -oa -mp 1 -m maq -hq -o /tmp/tmpf5wm7vgm/snps_realign_m1mp1oa.vcf -id /tmp/tmpf5wm7vgm/indels_realign_m1mp1oa.gff OK +410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.gff -it 2 -re -oa -mp 1 -hq -o /tmp/tmpf5wm7vgm/snps_realign_m0mp1oa.vcf -id /tmp/tmpf5wm7vgm/indels_realign_m0mp1oa.gff OK +410: snp_store /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-chr22-inf2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/snp_store/tests/human-reads2.sam -it 1 -ipt 0.1 -osc -re -oa -hq -o /tmp/tmpf5wm7vgm/snps_realign_m0mp1oa_it1ipt01.vcf -id /tmp/tmpf5wm7vgm/indels_realign_m0mp1oa_it1ipt01.gff OK 410: ============================== 410: total tests: 5 410: failed tests: 0 410: successful tests: 5 410: ============================== -405/414 Test #410: app_test_snp_store ................................................................ Passed 12.69 sec -400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i98.razers OK -400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i99.razers OK -400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-i100.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-of0.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-of1.fa OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-of2.eland OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-of3.gff OK -400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-so0.razers OK -400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpbeo1_nsb/se-adeno-reads100_1-id-so1.razers OK -400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id.razers OK -400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-r.razers OK -400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-f.razers OK -400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i90.razers OK -400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i91.razers OK -400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i92.razers OK -400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i93.razers OK -400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i94.razers OK -400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i95.razers OK -400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i96.razers OK -400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i97.razers OK -400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i98.razers OK -400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i99.razers OK -400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-i100.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-of0.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-of1.fa OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-of2.eland OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-of3.gff OK -390: DELETING TEMP DIR /tmp/tmpifk3izdg -390: Executing test for bs_tools -390: ========================= -390: -390: bisar -e3 4 -e4 5 -o /tmp/tmpifk3izdg/reads_se_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -390: OK -390: bisar -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpifk3izdg/reads_se_N6000_1.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -390: OK -390: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpifk3izdg/reads_se_N6000_2.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -390: OK -390: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.2 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpifk3izdg/reads_se_N6000_3.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -390: OK -390: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.8 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpifk3izdg/reads_se_N6000_4.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq -390: OK -390: bisar -e3 4 -e4 5 -o /tmp/tmpifk3izdg/reads_pe_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.L.fastq /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.R.fastq -390: OK -390: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmpifk3izdg/snps_se_0.vcf -b /tmp/tmpifk3izdg/meths_se_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam -390: OK -390: casbar -nec -mc 2 -msc 3 -mpc 0.5 -hes 0.005 -o /tmp/tmpifk3izdg/snps_se_1.vcf -b /tmp/tmpifk3izdg/meths_se_1.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam -390: OK -390: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmpifk3izdg/snps_pe_0.vcf -b /tmp/tmpifk3izdg/meths_pe_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000_0.CT_GA.verified.pos_so.sam -390: OK -390: ============================== -390: total tests: 9 -390: failed tests: 0 -390: successful tests: 9 -390: ============================== -406/414 Test #390: app_test_bs_tools ................................................................. Passed 17.68 sec -78: test_journaled_string_tree_find_shiftand OK -406: DELETING TEMP DIR /tmp/tmpznik92_w +403/414 Test #410: app_test_snp_store ................................................................ Passed 19.71 sec +411: splazers -sm 21 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml21_ep0_es1.out OK +411: splazers -sm 21 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml21_ep0_es2.out OK +411: splazers -sm 21 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml21_ep1_es0.out OK +411: splazers -sm 21 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml21_ep1_es1.out OK +411: splazers -sm 21 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml21_ep1_es2.out OK +411: splazers -sm 22 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml22_ep0_es0.out OK +411: splazers -sm 22 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml22_ep0_es1.out OK +411: splazers -sm 22 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml22_ep0_es2.out OK +411: splazers -sm 22 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml22_ep1_es0.out OK +411: splazers -sm 22 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml22_ep1_es1.out OK +411: splazers -sm 22 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml22_ep1_es2.out OK +411: splazers -sm 23 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml23_ep0_es0.out OK +411: splazers -sm 23 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml23_ep0_es1.out OK +411: splazers -sm 23 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml23_ep0_es2.out OK +411: splazers -sm 23 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml23_ep1_es0.out OK +411: splazers -sm 23 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml23_ep1_es1.out OK +411: splazers -sm 23 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml23_ep1_es2.out OK +411: splazers -sm 24 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml24_ep0_es0.out OK +411: splazers -sm 24 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml24_ep0_es1.out OK +411: splazers -sm 24 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml24_ep0_es2.out OK +411: splazers -sm 24 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml24_ep1_es0.out OK +411: splazers -sm 24 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml24_ep1_es1.out OK +411: splazers -sm 24 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml24_ep1_es2.out OK +411: splazers -sm 25 -ep 0 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml25_ep0_es0.out OK +411: splazers -sm 25 -ep 0 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml25_ep0_es1.out OK +411: splazers -sm 25 -ep 0 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml25_ep0_es2.out OK +411: splazers -sm 25 -ep 1 -es 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml25_ep1_es0.out OK +411: splazers -sm 25 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml25_ep1_es1.out OK +411: splazers -sm 25 -ep 1 -es 2 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml25_ep1_es2.out OK +411: splazers -r -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-r_ep1_es1.out OK +411: splazers -f -id -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-f_ep1_es1.out OK +411: splazers -i 90 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i90_ep1_es1.out OK +411: splazers -i 91 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i91_ep1_es1.out OK +106: StringTestCommon_EqualOperator type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > > OK +106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter seqan::String > OK +106: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_EqualOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_EqualOperator type parameter std::vector, std::allocator > > OK +106: StringTestCommon_EqualOperator type parameter std::vector > OK +106: StringTestCommon_EqualOperator type parameter std::vector > OK +106: StringTestCommon_EqualOperator type parameter std::vector > OK +106: StringTestCommon_EqualOperator type parameter std::deque, std::allocator > > OK +106: StringTestCommon_EqualOperator type parameter std::deque > OK +106: StringTestCommon_EqualOperator type parameter std::deque > OK +106: StringTestCommon_EqualOperator type parameter std::deque > OK +106: StringTestCommon_EqualOperator type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_EqualOperator type parameter std::forward_list > OK +106: StringTestCommon_EqualOperator type parameter std::forward_list > OK +106: StringTestCommon_EqualOperator type parameter std::forward_list > OK +106: StringTestCommon_EqualOperator type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_EqualOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String >, 4194304u, 2u> > > OK +411: splazers -i 92 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i92_ep1_es1.outDELETING TEMP DIR /tmp/tmpu9e0cv6c +411: OK +411: splazers -i 93 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i93_ep1_es1.out OK +411: splazers -i 94 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i94_ep1_es1.out OK +411: splazers -i 95 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i95_ep1_es1.out OK +411: splazers -i 96 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i96_ep1_es1.out OK +411: splazers -i 97 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i97_ep1_es1.out OK +411: splazers -i 98 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i98_ep1_es1.out OK +411: splazers -i 99 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-i99_ep1_es1.out OK +411: splazers -of 3 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-of3_ep1_es1.out OK +411: splazers -of 4 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-of4_ep1_es1.out OK +411: splazers -so 0 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-so0_ep1_es1.out OK +411: splazers -so 1 -sm 20 -ep 1 -es 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads100_1.fa -o /tmp/tmpu9e0cv6c/se-adeno-reads100_1_mml20-so1_ep1_es1.out OK +411: splazers -an /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/splazers/tests/adeno-reads-pe.sam -o /tmp/tmpu9e0cv6c/anchored_adeno_example100.out -ll 300 -le 90 OK +411: ============================== +411: total tests: 78 +411: failed tests: 0 +411: successful tests: 78 +411: ============================== +404/414 Test #411: app_test_splazers ................................................................. Passed 25.92 sec +106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i98.razers OK +400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i99.razers OK +400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-i100.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-of0.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-of1.fa OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-of2.eland OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-of3.gff OK +400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-so0.razers OK +400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa -o /tmp/tmpsfo_enn_/se-adeno-reads100_1-id-so1.razers OK +400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id.razers OK +400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-r.razers OK +400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-f.razers OK +400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i90.razers OK +400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i91.razers OK +400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i92.razers OK +400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i93.razers OK +400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i94.razers OK +400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i95.razers OK +400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i96.razers OK +400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i97.razers OK +400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i98.razers OK +400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i99.razers OK +400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-i100.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-of0.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-of1.fa OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-of2.eland OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-of3.gff OK +78: test_journaled_string_tree_find_horspool OK +106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +406: DELETING TEMP DIR /tmp/tmpw1ezy6tg 406: Executing test for searchjoin 406: =========================== 406: -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 0 -i geo -t 4 -sl 5 -o /tmp/tmpznik92_w/join_geo_0_5.out OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 1 -i geo -t 4 -sl 5 -o /tmp/tmpznik92_w/join_geo_1_5.out OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 3 -i geo -t 4 -sl 5 -o /tmp/tmpznik92_w/join_geo_3_5.out OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 0 -i dna -t 4 -sl 10 -o /tmp/tmpznik92_w/join_dna_0_10.out OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 8 -i dna -t 4 -sl 10 -o /tmp/tmpznik92_w/join_dna_8_10.out OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 16 -i dna -t 4 -sl 10 -o /tmp/tmpznik92_w/join_dna_16_10.out OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_queries.csv --no-wait -i geo -t 4 -sl 5 -o /tmp/tmpznik92_w/search_geo_5.out OK -406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_queries.csv --no-wait -i dna -t 4 -sl 10 -o /tmp/tmpznik92_w/search_dna_10.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 0 -i geo -t 4 -sl 5 -o /tmp/tmpw1ezy6tg/join_geo_0_5.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 1 -i geo -t 4 -sl 5 -o /tmp/tmpw1ezy6tg/join_geo_1_5.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv 3 -i geo -t 4 -sl 5 -o /tmp/tmpw1ezy6tg/join_geo_3_5.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 0 -i dna -t 4 -sl 10 -o /tmp/tmpw1ezy6tg/join_dna_0_10.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 8 -i dna -t 4 -sl 10 -o /tmp/tmpw1ezy6tg/join_dna_8_10.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_join /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv 16 -i dna -t 4 -sl 10 -o /tmp/tmpw1ezy6tg/join_dna_16_10.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/geo_queries.csv --no-wait -i geo -t 4 -sl 5 -o /tmp/tmpw1ezy6tg/search_geo_5.out OK +406: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/s4_search /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_database.csv /build/reproducible-path/seqan2-2.4.0+dfsg/apps/searchjoin/tests/dna_queries.csv --no-wait -i dna -t 4 -sl 10 -o /tmp/tmpw1ezy6tg/search_dna_10.out OK 406: ============================== 406: total tests: 8 406: failed tests: 0 406: successful tests: 8 406: ============================== -407/414 Test #406: app_test_searchjoin ............................................................... Passed 19.51 sec -395: DELETING TEMP DIR /tmp/tmpi1xen2tl -395: Executing test for micro_razers -395: =============================== -395: -395: micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_default.razers OK -395: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl14.razers OK -395: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl14.sam OK -395: micro_razers -sL 14 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl14_se.razers OK -395: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl15.razers OK -395: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl15.sam OK -395: micro_razers -sL 15 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl15_se.razers OK -395: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl16.razers OK -395: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl16.sam OK -395: micro_razers -sL 16 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl16_se.razers OK -395: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl17.razers OK -395: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl17.sam OK -395: micro_razers -sL 17 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl17_se.razers OK -395: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl18.razers OK -395: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl18.sam OK -395: micro_razers -sL 18 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl18_se.razers OK -395: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl19.razers OK -395: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl19.sam OK -395: micro_razers -sL 19 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl19_se.razers OK -395: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl20.razers OK -395: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl20.sam OK -395: micro_razers -sL 20 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl20_se.razers OK -395: micro_razers -sL 18 -m 20 -pa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmpi1xen2tl/se-adeno-reads36_1_sl18_m20_pa.razers OK -395: ============================== -395: total tests: 23 -395: failed tests: 0 -395: successful tests: 23 -395: ============================== -408/414 Test #395: app_test_micro_razers ............................................................. Passed 21.43 sec +405/414 Test #406: app_test_searchjoin ............................................................... Passed 29.36 sec +106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter seqan::String > OK +106: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_UnequalOperator type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_UnequalOperator type parameter std::vector, std::allocator > > OK +106: StringTestCommon_UnequalOperator type parameter std::vector > OK +106: StringTestCommon_UnequalOperator type parameter std::vector > OK +106: StringTestCommon_UnequalOperator type parameter std::vector > OK +106: StringTestCommon_UnequalOperator type parameter std::deque, std::allocator > > OK +106: StringTestCommon_UnequalOperator type parameter std::deque > OK +106: StringTestCommon_UnequalOperator type parameter std::deque > OK +106: StringTestCommon_UnequalOperator type parameter std::deque > OK +106: StringTestCommon_UnequalOperator type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +106: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +106: StringTestCommon_UnequalOperator type parameter std::forward_list > OK +106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_UnequalOperator type parameter std::__cxx11::list > OK +106: StringTestCommon_Assign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Assign type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Assign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK 412: Executing test for stellar 412: ========================= 412: -412: stellar -e 0.1 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/e-1.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-1.fa +412: stellar -e 0.1 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/e-1.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-1.fa 412: OK -412: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/5e-2.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +412: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/5e-2.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 412: OK -412: stellar -e 0.025 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/25e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_25e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_25e-3.fa +412: stellar -e 0.025 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/25e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_25e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_25e-3.fa 412: OK -412: stellar -e 0.075 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/75e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_75e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_75e-3.fa +412: stellar -e 0.075 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/75e-3.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_75e-3.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_75e-3.fa 412: OK -412: stellar -e 0.0001 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/e-4.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-4.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-4.fa +412: stellar -e 0.0001 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/e-4.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_e-4.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_e-4.fa 412: OK -412: stellar -e 0.05 -l 20 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/minLen20.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +412: stellar -e 0.05 -l 20 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/minLen20.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 412: OK -412: stellar -e 0.05 -l 150 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/minLen150.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +412: stellar -e 0.05 -l 150 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/minLen150.gff /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 412: OK -412: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmporwa6uw0/5e-2.txt /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa +412: stellar -e 0.05 -l 50 -x 10 -k 7 -n 5000 -s 10000 -f -v -t -o /tmp/tmpiuplfvdz/5e-2.txt /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq1_5e-2.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/stellar/tests/512_simSeq2_5e-2.fa 412: OK 412: ============================== 412: total tests: 8 412: failed tests: 0 412: successful tests: 8 412: ============================== -409/414 Test #412: app_test_stellar .................................................................. Passed 21.91 sec -78: test_journaled_string_tree_find_shiftor OK -400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-so0.razersDELETING TEMP DIR /tmp/tmpbeo1_nsb +406/414 Test #412: app_test_stellar .................................................................. Passed 34.35 sec +106: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Assign type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Assign type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Assign type parameter seqan::String > > OK +106: StringTestCommon_Assign type parameter seqan::String > > OK +106: StringTestCommon_Assign type parameter seqan::String > > OK +106: StringTestCommon_Assign type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter seqan::String > OK +106: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Assign type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Assign type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Assign type parameter std::vector > OK +106: StringTestCommon_Assign type parameter std::vector > OK +106: StringTestCommon_Assign type parameter std::vector > OK +106: StringTestCommon_Assign type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Assign type parameter std::deque > OK +106: StringTestCommon_Assign type parameter std::deque > OK +106: StringTestCommon_Assign type parameter std::deque > OK +106: StringTestCommon_Assign type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Assign type parameter std::forward_list > OK +106: StringTestCommon_Assign type parameter std::forward_list > OK +106: StringTestCommon_Assign type parameter std::forward_list > OK +106: StringTestCommon_Assign type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Assign type parameter std::__cxx11::list > OK +106: StringTestCommon_Assign type parameter std::__cxx11::list > OK +106: StringTestCommon_Assign type parameter std::__cxx11::list > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +395: DELETING TEMP DIR /tmp/tmp1u_al64j +395: Executing test for micro_razers +395: =============================== +395: +395: micro_razers /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_default.razers OK +395: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl14.razers OK +395: micro_razers -sL 14 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl14.sam OK +395: micro_razers -sL 14 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl14_se.razers OK +395: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl15.razers OK +395: micro_razers -sL 15 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl15.sam OK +395: micro_razers -sL 15 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl15_se.razers OK +395: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl16.razers OK +395: micro_razers -sL 16 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl16.sam OK +395: micro_razers -sL 16 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl16_se.razers OK +395: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl17.razers OK +395: micro_razers -sL 17 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl17.sam OK +395: micro_razers -sL 17 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl17_se.razers OK +395: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl18.razers OK +395: micro_razers -sL 18 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl18.sam OK +395: micro_razers -sL 18 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl18_se.razers OK +395: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl19.razers OK +395: micro_razers -sL 19 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl19.sam OK +395: micro_razers -sL 19 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl19_se.razers OK +395: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl20.razers OK +395: micro_razers -sL 20 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl20.sam OK +395: micro_razers -sL 20 -sE /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl20_se.razers OK +395: micro_razers -sL 18 -m 20 -pa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/micro_razers/tests/adeno-reads36_1.fa -o /tmp/tmp1u_al64j/se-adeno-reads36_1_sl18_m20_pa.razers OK +395: ============================== +395: total tests: 23 +395: failed tests: 0 +395: successful tests: 23 +395: ============================== +407/414 Test #395: app_test_micro_razers ............................................................. Passed 37.24 sec +106: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter seqan::String > OK +106: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_OperatorAssign type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_OperatorAssign type parameter std::vector, std::allocator > > OK +106: StringTestCommon_OperatorAssign type parameter std::vector > OK +106: StringTestCommon_OperatorAssign type parameter std::vector > OK +106: StringTestCommon_OperatorAssign type parameter std::vector > OK +106: StringTestCommon_OperatorAssign type parameter std::deque, std::allocator > > OK +106: StringTestCommon_OperatorAssign type parameter std::deque > OK +106: StringTestCommon_OperatorAssign type parameter std::deque > OK +106: StringTestCommon_OperatorAssign type parameter std::deque > OK +106: StringTestCommon_OperatorAssign type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +106: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +106: StringTestCommon_OperatorAssign type parameter std::forward_list > OK +106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +106: StringTestCommon_OperatorAssign type parameter std::__cxx11::list > OK +106: StringTestCommon_Swap type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Swap type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Swap type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Swap type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Swap type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Swap type parameter seqan::String > > OK +106: StringTestCommon_Swap type parameter seqan::String > > OK +106: StringTestCommon_Swap type parameter seqan::String > > OK +106: StringTestCommon_Swap type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter seqan::String > OK +106: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Swap type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Swap type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Swap type parameter std::vector > OK +106: StringTestCommon_Swap type parameter std::vector > OK +106: StringTestCommon_Swap type parameter std::vector > OK +106: StringTestCommon_Swap type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Swap type parameter std::deque > OK +106: StringTestCommon_Swap type parameter std::deque > OK +106: StringTestCommon_Swap type parameter std::deque > OK +106: StringTestCommon_Swap type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Swap type parameter std::forward_list > OK +106: StringTestCommon_Swap type parameter std::forward_list > OK +106: StringTestCommon_Swap type parameter std::forward_list > OK +106: StringTestCommon_Swap type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Swap type parameter std::__cxx11::list > OK +106: StringTestCommon_Swap type parameter std::__cxx11::list > OK +106: StringTestCommon_Swap type parameter std::__cxx11::list > OK +106: StringTestCommon_Reverse type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Reverse type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Reverse type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +78: test_journaled_string_tree_find_shiftand OK +106: StringTestCommon_Reverse type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Reverse type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Reverse type parameter seqan::String > > OK +106: StringTestCommon_Reverse type parameter seqan::String > > OK +106: StringTestCommon_Reverse type parameter seqan::String > > OK +106: StringTestCommon_Reverse type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter seqan::String > OK +106: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Reverse type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Reverse type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Reverse type parameter std::vector > OK +106: StringTestCommon_Reverse type parameter std::vector > OK +106: StringTestCommon_Reverse type parameter std::vector > OK +106: StringTestCommon_Reverse type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Reverse type parameter std::deque > OK +106: StringTestCommon_Reverse type parameter std::deque > OK +106: StringTestCommon_Reverse type parameter std::deque > OK +106: StringTestCommon_Reverse type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Reverse type parameter std::forward_list > OK +106: StringTestCommon_Reverse type parameter std::forward_list > OK +106: StringTestCommon_Reverse type parameter std::forward_list > OK +106: StringTestCommon_Reverse type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +106: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +106: StringTestCommon_Reverse type parameter std::__cxx11::list > OK +106: StringTestCommon_AssignValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_AssignValue type parameter seqan::String > > OK +106: StringTestCommon_AssignValue type parameter seqan::String > > OK +106: StringTestCommon_AssignValue type parameter seqan::String > > OK +106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter seqan::String > OK +106: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_AssignValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_AssignValue type parameter std::vector, std::allocator > > OK +106: StringTestCommon_AssignValue type parameter std::vector > OK +106: StringTestCommon_AssignValue type parameter std::vector > OK +106: StringTestCommon_AssignValue type parameter std::vector > OK +106: StringTestCommon_AssignValue type parameter std::deque, std::allocator > > OK +106: StringTestCommon_AssignValue type parameter std::deque > OK +106: StringTestCommon_AssignValue type parameter std::deque > OK +106: StringTestCommon_AssignValue type parameter std::deque > OK +106: StringTestCommon_AssignValue type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_AssignValue type parameter std::forward_list > OK +106: StringTestCommon_AssignValue type parameter std::forward_list > OK +106: StringTestCommon_AssignValue type parameter std::forward_list > OK +106: StringTestCommon_AssignValue type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +106: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +106: StringTestCommon_AssignValue type parameter std::__cxx11::list > OK +106: StringTestCommon_Append type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Append type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Append type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +390: DELETING TEMP DIR /tmp/tmpdy6tm43g +390: Executing test for bs_tools +390: ========================= +390: +390: bisar -e3 4 -e4 5 -o /tmp/tmpdy6tm43g/reads_se_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +390: OK +390: bisar -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpdy6tm43g/reads_se_N6000_1.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +390: OK +390: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.5 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpdy6tm43g/reads_se_N6000_2.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +390: OK +390: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.2 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpdy6tm43g/reads_se_N6000_3.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +390: OK +390: bisar -nse -nsi -nsd -gas -4.5 -ges -2.0 -der 0.001 -bsc 0.99 -gmr 0.8 -i 0.8 -rn 0.001 -pms 0.9 -e3 4 -e4 5 -o /tmp/tmpdy6tm43g/reads_se_N6000_4.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000.fastq +390: OK +390: bisar -e3 4 -e4 5 -o /tmp/tmpdy6tm43g/reads_pe_N6000_0.CT_GA.verified.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.CT_GA.sam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.L.fastq /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000.R.fastq +390: OK +390: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmpdy6tm43g/snps_se_0.vcf -b /tmp/tmpdy6tm43g/meths_se_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam +390: OK +390: casbar -nec -mc 2 -msc 3 -mpc 0.5 -hes 0.005 -o /tmp/tmpdy6tm43g/snps_se_1.vcf -b /tmp/tmpdy6tm43g/meths_se_1.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_se_N6000_2.CT_GA.verified.pos_so.sam +390: OK +390: casbar -nec -mc 6 -msc 5 -mpc 0.5 -hes 0.005 -o /tmp/tmpdy6tm43g/snps_pe_0.vcf -b /tmp/tmpdy6tm43g/meths_pe_0.bed /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/hg18_chr21_3000.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/bs_tools/tests/reads_pe_N6000_0.CT_GA.verified.pos_so.sam +390: OK +390: ============================== +390: total tests: 9 +390: failed tests: 0 +390: successful tests: 9 +390: ============================== +408/414 Test #390: app_test_bs_tools ................................................................. Passed 47.80 sec +400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-so0.razersDELETING TEMP DIR /tmp/tmpsfo_enn_ 400: OK -400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads36_2-id-so1.razers OK -400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id.razers OK -400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-r.razers OK -400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-f.razers OK -400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i90.razers OK -400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i91.razers OK -400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i92.razers OK -400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i93.razers OK -400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i94.razers OK -400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i95.razers OK -400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i96.razers OK -400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i97.razers OK -400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i98.razers OK -400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i99.razers OK -400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-i100.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-of0.razers OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-of1.fa OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-of2.eland OK -400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-of3.gff OK -400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-so0.razers OK -400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpbeo1_nsb/pe-adeno-reads100_2-id-so1.razers OK +400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads36_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads36_2-id-so1.razers OK +400: razers --low-memory /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id.razers OK +400: razers --low-memory -id -r /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-r.razers OK +400: razers --low-memory -id -f /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-f.razers OK +400: razers --low-memory -id -i 90 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i90.razers OK +400: razers --low-memory -id -i 91 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i91.razers OK +400: razers --low-memory -id -i 92 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i92.razers OK +400: razers --low-memory -id -i 93 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i93.razers OK +400: razers --low-memory -id -i 94 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i94.razers OK +400: razers --low-memory -id -i 95 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i95.razers OK +400: razers --low-memory -id -i 96 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i96.razers OK +400: razers --low-memory -id -i 97 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i97.razers OK +400: razers --low-memory -id -i 98 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i98.razers OK +400: razers --low-memory -id -i 99 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i99.razers OK +400: razers --low-memory -id -i 100 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-i100.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-of0.razers OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-of1.fa OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-of2.eland OK +400: razers --low-memory -id /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-of3.gff OK +400: razers --low-memory -id -so 0 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-so0.razers OK +400: razers --low-memory -id -so 1 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-genome.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_1.fa /build/reproducible-path/seqan2-2.4.0+dfsg/apps/razers/tests/adeno-reads100_2.fa -o /tmp/tmpsfo_enn_/pe-adeno-reads100_2-id-so1.razers OK 400: ============================== 400: total tests: 84 400: failed tests: 0 400: successful tests: 84 400: ============================== -410/414 Test #400: app_test_razers ................................................................... Passed 28.16 sec +78: test_journaled_string_tree_find_shiftor OK +409/414 Test #400: app_test_razers ................................................................... Passed 48.33 sec +106: StringTestCommon_Append type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Append type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Append type parameter seqan::String > > OK +106: StringTestCommon_Append type parameter seqan::String > > OK +106: StringTestCommon_Append type parameter seqan::String > > OK +106: StringTestCommon_Append type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter seqan::String > OK +106: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Append type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Append type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Append type parameter std::vector > OK +106: StringTestCommon_Append type parameter std::vector > OK +106: StringTestCommon_Append type parameter std::vector > OK +106: StringTestCommon_Append type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Append type parameter std::deque > OK +106: StringTestCommon_Append type parameter std::deque > OK +106: StringTestCommon_Append type parameter std::deque > OK +106: StringTestCommon_Append type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Append type parameter std::forward_list > OK +106: StringTestCommon_Append type parameter std::forward_list > OK +106: StringTestCommon_Append type parameter std::forward_list > OK +106: StringTestCommon_Append type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Append type parameter std::__cxx11::list > OK +106: StringTestCommon_Append type parameter std::__cxx11::list > OK +106: StringTestCommon_Append type parameter std::__cxx11::list > OK +106: StringTestCommon_AppendValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_AppendValue type parameter seqan::String > > OK +106: StringTestCommon_AppendValue type parameter seqan::String > > OK +106: StringTestCommon_AppendValue type parameter seqan::String > > OK +106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter seqan::String > OK +106: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_AppendValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_AppendValue type parameter std::vector, std::allocator > > OK +106: StringTestCommon_AppendValue type parameter std::vector > OK +106: StringTestCommon_AppendValue type parameter std::vector > OK +106: StringTestCommon_AppendValue type parameter std::vector > OK +106: StringTestCommon_AppendValue type parameter std::deque, std::allocator > > OK +106: StringTestCommon_AppendValue type parameter std::deque > OK +106: StringTestCommon_AppendValue type parameter std::deque > OK +106: StringTestCommon_AppendValue type parameter std::deque > OK +106: StringTestCommon_AppendValue type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_AppendValue type parameter std::forward_list > OK +106: StringTestCommon_AppendValue type parameter std::forward_list > OK +106: StringTestCommon_AppendValue type parameter std::forward_list > OK +106: StringTestCommon_AppendValue type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +106: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +106: StringTestCommon_AppendValue type parameter std::__cxx11::list > OK +106: StringTestCommon_Back type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Back type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Back type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Back type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Back type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Back type parameter seqan::String > > OK +106: StringTestCommon_Back type parameter seqan::String > > OK +106: StringTestCommon_Back type parameter seqan::String > > OK +106: StringTestCommon_Back type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter seqan::String > OK +106: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Back type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Back type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Back type parameter std::vector > OK +106: StringTestCommon_Back type parameter std::vector > OK +106: StringTestCommon_Back type parameter std::vector > OK +106: StringTestCommon_Back type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Back type parameter std::deque > OK +106: StringTestCommon_Back type parameter std::deque > OK +106: StringTestCommon_Back type parameter std::deque > OK +106: StringTestCommon_Back type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Back type parameter std::forward_list > OK +106: StringTestCommon_Back type parameter std::forward_list > OK +106: StringTestCommon_Back type parameter std::forward_list > OK +106: StringTestCommon_Back type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Back type parameter std::__cxx11::list > OK +106: StringTestCommon_Back type parameter std::__cxx11::list > OK +106: StringTestCommon_Back type parameter std::__cxx11::list > OK +106: StringTestCommon_Begin type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Begin type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Begin type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Begin type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Begin type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Begin type parameter seqan::String > > OK +106: StringTestCommon_Begin type parameter seqan::String > > OK +106: StringTestCommon_Begin type parameter seqan::String > > OK +106: StringTestCommon_Begin type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter seqan::String > OK +106: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Begin type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Begin type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Begin type parameter std::vector > OK +106: StringTestCommon_Begin type parameter std::vector > OK +106: StringTestCommon_Begin type parameter std::vector > OK +106: StringTestCommon_Begin type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Begin type parameter std::deque > OK +106: StringTestCommon_Begin type parameter std::deque > OK +106: StringTestCommon_Begin type parameter std::deque > OK +106: StringTestCommon_Begin type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Begin type parameter std::forward_list > OK +106: StringTestCommon_Begin type parameter std::forward_list > OK +106: StringTestCommon_Begin type parameter std::forward_list > OK +106: StringTestCommon_Begin type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Begin type parameter std::__cxx11::list > OK +106: StringTestCommon_Begin type parameter std::__cxx11::list > OK +106: StringTestCommon_Begin type parameter std::__cxx11::list > OK +106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > > OK +106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter seqan::String > OK +106: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_BeginPosition type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_BeginPosition type parameter std::vector, std::allocator > > OK +106: StringTestCommon_BeginPosition type parameter std::vector > OK +106: StringTestCommon_BeginPosition type parameter std::vector > OK +106: StringTestCommon_BeginPosition type parameter std::vector > OK +106: StringTestCommon_BeginPosition type parameter std::deque, std::allocator > > OK +106: StringTestCommon_BeginPosition type parameter std::deque > OK +106: StringTestCommon_BeginPosition type parameter std::deque > OK +106: StringTestCommon_BeginPosition type parameter std::deque > OK +106: StringTestCommon_BeginPosition type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_BeginPosition type parameter std::forward_list > OK +106: StringTestCommon_BeginPosition type parameter std::forward_list > OK +106: StringTestCommon_BeginPosition type parameter std::forward_list > OK +106: StringTestCommon_BeginPosition type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +106: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +106: StringTestCommon_BeginPosition type parameter std::__cxx11::list > OK +106: StringTestCommon_Capacity type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Capacity type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Capacity type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK 78: test_journaled_string_tree_find_myers OK 78: ************************************** 78: Total Tests: 4 78: Skipped: 0 78: Errors: 0 78: ************************************** -411/414 Test #78: test_journaled_string_tree_find ................................................... Passed 38.09 sec -399: DELETING TEMP DIR /tmp/tmpbu4l4wbi +410/414 Test #78: test_journaled_string_tree_find ................................................... Passed 60.16 sec +106: StringTestCommon_Capacity type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Capacity type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Capacity type parameter seqan::String > > OK +106: StringTestCommon_Capacity type parameter seqan::String > > OK +106: StringTestCommon_Capacity type parameter seqan::String > > OK +106: StringTestCommon_Capacity type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter seqan::String > OK +106: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Capacity type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Capacity type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Capacity type parameter std::vector > OK +106: StringTestCommon_Capacity type parameter std::vector > OK +106: StringTestCommon_Capacity type parameter std::vector > OK +106: StringTestCommon_Capacity type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Capacity type parameter std::deque > OK +106: StringTestCommon_Capacity type parameter std::deque > OK +106: StringTestCommon_Capacity type parameter std::deque > OK +106: StringTestCommon_Capacity type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Capacity type parameter std::forward_list > OK +106: StringTestCommon_Capacity type parameter std::forward_list > OK +106: StringTestCommon_Capacity type parameter std::forward_list > OK +106: StringTestCommon_Capacity type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +106: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +106: StringTestCommon_Capacity type parameter std::__cxx11::list > OK +106: StringTestCommon_Clear type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Clear type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Clear type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Clear type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Clear type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Clear type parameter seqan::String > > OK +106: StringTestCommon_Clear type parameter seqan::String > > OK +106: StringTestCommon_Clear type parameter seqan::String > > OK +106: StringTestCommon_Clear type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter seqan::String > OK +106: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Clear type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Clear type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Clear type parameter std::vector > OK +106: StringTestCommon_Clear type parameter std::vector > OK +106: StringTestCommon_Clear type parameter std::vector > OK +106: StringTestCommon_Clear type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Clear type parameter std::deque > OK +106: StringTestCommon_Clear type parameter std::deque > OK +106: StringTestCommon_Clear type parameter std::deque > OK +106: StringTestCommon_Clear type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Clear type parameter std::forward_list > OK +106: StringTestCommon_Clear type parameter std::forward_list > OK +106: StringTestCommon_Clear type parameter std::forward_list > OK +106: StringTestCommon_Clear type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Clear type parameter std::__cxx11::list > OK +106: StringTestCommon_Clear type parameter std::__cxx11::list > OK +106: StringTestCommon_Clear type parameter std::__cxx11::list > OK +106: StringTestCommon_End type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_End type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_End type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_End type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_End type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_End type parameter seqan::String > > OK +106: StringTestCommon_End type parameter seqan::String > > OK +106: StringTestCommon_End type parameter seqan::String > > OK +106: StringTestCommon_End type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter seqan::String > OK +106: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_End type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_End type parameter std::vector, std::allocator > > OK +106: StringTestCommon_End type parameter std::vector > OK +106: StringTestCommon_End type parameter std::vector > OK +106: StringTestCommon_End type parameter std::vector > OK +106: StringTestCommon_End type parameter std::deque, std::allocator > > OK +106: StringTestCommon_End type parameter std::deque > OK +106: StringTestCommon_End type parameter std::deque > OK +106: StringTestCommon_End type parameter std::deque > OK +106: StringTestCommon_End type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_End type parameter std::forward_list > OK +106: StringTestCommon_End type parameter std::forward_list > OK +106: StringTestCommon_End type parameter std::forward_list > OK +106: StringTestCommon_End type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_End type parameter std::__cxx11::list > OK +106: StringTestCommon_End type parameter std::__cxx11::list > OK +106: StringTestCommon_End type parameter std::__cxx11::list > OK +106: StringTestCommon_EndPosition type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_EndPosition type parameter seqan::String > > OK +106: StringTestCommon_EndPosition type parameter seqan::String > > OK +106: StringTestCommon_EndPosition type parameter seqan::String > > OK +106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter seqan::String > OK +106: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_EndPosition type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_EndPosition type parameter std::vector, std::allocator > > OK +106: StringTestCommon_EndPosition type parameter std::vector > OK +106: StringTestCommon_EndPosition type parameter std::vector > OK +106: StringTestCommon_EndPosition type parameter std::vector > OK +106: StringTestCommon_EndPosition type parameter std::deque, std::allocator > > OK +106: StringTestCommon_EndPosition type parameter std::deque > OK +106: StringTestCommon_EndPosition type parameter std::deque > OK +106: StringTestCommon_EndPosition type parameter std::deque > OK +106: StringTestCommon_EndPosition type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_EndPosition type parameter std::forward_list > OK +106: StringTestCommon_EndPosition type parameter std::forward_list > OK +106: StringTestCommon_EndPosition type parameter std::forward_list > OK +106: StringTestCommon_EndPosition type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +106: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +106: StringTestCommon_EndPosition type parameter std::__cxx11::list > OK +106: StringTestCommon_Erase type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Erase type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Erase type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Erase type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Erase type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Erase type parameter seqan::String > > OK +106: StringTestCommon_Erase type parameter seqan::String > > OK +106: StringTestCommon_Erase type parameter seqan::String > > OK +106: StringTestCommon_Erase type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter seqan::String > OK +106: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Erase type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Erase type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Erase type parameter std::vector > OK +106: StringTestCommon_Erase type parameter std::vector > OK +106: StringTestCommon_Erase type parameter std::vector > OK +106: StringTestCommon_Erase type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Erase type parameter std::deque > OK +106: StringTestCommon_Erase type parameter std::deque > OK +106: StringTestCommon_Erase type parameter std::deque > OK +106: StringTestCommon_Erase type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Erase type parameter std::forward_list > OK +106: StringTestCommon_Erase type parameter std::forward_list > OK +106: StringTestCommon_Erase type parameter std::forward_list > OK +106: StringTestCommon_Erase type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Erase type parameter std::__cxx11::list > OK +106: StringTestCommon_Erase type parameter std::__cxx11::list > OK +106: StringTestCommon_Erase type parameter std::__cxx11::list > OK +106: StringTestCommon_EraseBack type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_EraseBack type parameter seqan::String > > OK +106: StringTestCommon_EraseBack type parameter seqan::String > > OK +106: StringTestCommon_EraseBack type parameter seqan::String > > OK +106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter seqan::String > OK +106: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_EraseBack type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_EraseBack type parameter std::vector, std::allocator > > OK +106: StringTestCommon_EraseBack type parameter std::vector > OK +106: StringTestCommon_EraseBack type parameter std::vector > OK +106: StringTestCommon_EraseBack type parameter std::vector > OK +106: StringTestCommon_EraseBack type parameter std::deque, std::allocator > > OK +106: StringTestCommon_EraseBack type parameter std::deque > OK +106: StringTestCommon_EraseBack type parameter std::deque > OK +106: StringTestCommon_EraseBack type parameter std::deque > OK +106: StringTestCommon_EraseBack type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_EraseBack type parameter std::forward_list > OK +106: StringTestCommon_EraseBack type parameter std::forward_list > OK +106: StringTestCommon_EraseBack type parameter std::forward_list > OK +106: StringTestCommon_EraseBack type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +106: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +106: StringTestCommon_EraseBack type parameter std::__cxx11::list > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String >, 4194304u, 2u> > > OK +399: DELETING TEMP DIR /tmp/tmpe9tdkwiy +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK 399: Executing test for rabema 399: ========================= 399: -399: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.sam -o /tmp/tmpbu4l4wbi/gold-adeno-hamming-08.by_qname.sam OK -399: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.sam -o /tmp/tmpbu4l4wbi/gold-adeno-edit-08.by_qname.sam OK -399: rabema_build_gold_standard --distance-metric hamming -e 8 -o /tmp/tmpbu4l4wbi/gold-adeno-hamming-08.gsi --reference /tmp/tmpbu4l4wbi/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.by_coordinate.sam OK -399: rabema_build_gold_standard --distance-metric edit -e 8 -o /tmp/tmpbu4l4wbi/gold-adeno-edit-08.gsi --reference /tmp/tmpbu4l4wbi/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.by_coordinate.sam OK -399: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmpbu4l4wbi/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK -399: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmpbu4l4wbi/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK -399: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmpbu4l4wbi/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK -399: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmpbu4l4wbi/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK +399: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.sam -o /tmp/tmpe9tdkwiy/gold-adeno-hamming-08.by_qname.sam OK +399: rabema_prepare_sam -i /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.sam -o /tmp/tmpe9tdkwiy/gold-adeno-edit-08.by_qname.sam OK +399: rabema_build_gold_standard --distance-metric hamming -e 8 -o /tmp/tmpe9tdkwiy/gold-adeno-hamming-08.gsi --reference /tmp/tmpe9tdkwiy/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.by_coordinate.sam OK +399: rabema_build_gold_standard --distance-metric edit -e 8 -o /tmp/tmpe9tdkwiy/gold-adeno-edit-08.gsi --reference /tmp/tmpe9tdkwiy/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.by_coordinate.sam OK +399: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmpe9tdkwiy/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK +399: rabema_evaluate --distance-metric hamming -e 8 --reference /tmp/tmpe9tdkwiy/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-hamming-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-hamming-08.gsi OK +399: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmpe9tdkwiy/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-08.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK +399: rabema_evaluate --distance-metric edit -e 8 --reference /tmp/tmpe9tdkwiy/adeno-genome.fa --in-bam /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/razers2-adeno-edit-04.sam --in-gsi /build/reproducible-path/seqan2-2.4.0+dfsg/apps/rabema/tests/gold-adeno-edit-08.gsi OK 399: ============================== 399: total tests: 8 399: failed tests: 0 399: successful tests: 8 399: ============================== -412/414 Test #399: app_test_rabema ................................................................... Passed 35.53 sec -391: DELETING TEMP DIR /tmp/tmp46d_kbax -391: Executing test for dfi -391: ====================== -391: -391: dfi /tmp/tmp46d_kbax/datasets/bbe.fa /tmp/tmp46d_kbax/datasets/kjv.fa --support 0.002 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/bbe.fa /tmp/tmp46d_kbax/datasets/kjv.fa --minmax 155 31102 --minmax 1 15551 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --minmax 10 2000 --minmax 1 1500 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.0005 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.001 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.01 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.1 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.5 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.9 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 1 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.002 --growth 1 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.002 --growth 2 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/CompWindows.fa /tmp/tmp46d_kbax/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK -391: dfi /tmp/tmp46d_kbax/datasets/fasta1.fa /tmp/tmp46d_kbax/datasets/fasta2.fa --support 1 --growth 2 OK -391: ============================== -391: total tests: 15 -391: failed tests: 0 -391: successful tests: 15 -391: ============================== -413/414 Test #391: app_test_dfi ...................................................................... Passed 63.22 sec -392: DELETING TEMP DIR /tmp/tmpoo3sf8mh +411/414 Test #399: app_test_rabema ................................................................... Passed 59.04 sec +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String >, unsigned long> > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String, seqan::Packed > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String, seqan::Array<100ul> > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String, seqan::Block<4096ul> > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String, seqan::Alloc > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter seqan::String > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::__cxx11::basic_string, std::allocator > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::vector, std::allocator > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::vector > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::vector > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::vector > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::deque, std::allocator > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::deque > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::deque > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::deque > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::forward_list, std::allocator > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::forward_list > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::forward_list > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::forward_list > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::__cxx11::list, std::allocator > > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::__cxx11::list > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::__cxx11::list > OK +106: 1398 +106: 1400 +106: StringTestCommon_Front type parameter std::__cxx11::list > OK +106: StringTestCommon_GetValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String >, 4194304u, 2u> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String, seqan::MMap >, unsigned long> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String >, unsigned long> > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String, seqan::Packed > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String, seqan::Array<100ul> > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String, seqan::Block<4096ul> > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String, seqan::Alloc > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter seqan::String > SKIPPED +106: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED +106: StringTestCommon_GetValue type parameter std::__cxx11::basic_string, std::allocator > SKIPPED +106: StringTestCommon_GetValue type parameter std::vector, std::allocator > > SKIPPED +106: StringTestCommon_GetValue type parameter std::vector > SKIPPED +106: StringTestCommon_GetValue type parameter std::vector > SKIPPED +106: StringTestCommon_GetValue type parameter std::vector > SKIPPED +106: StringTestCommon_GetValue type parameter std::deque, std::allocator > > SKIPPED +106: StringTestCommon_GetValue type parameter std::deque > SKIPPED +106: StringTestCommon_GetValue type parameter std::deque > SKIPPED +106: StringTestCommon_GetValue type parameter std::deque > SKIPPED +106: StringTestCommon_GetValue type parameter std::forward_list, std::allocator > > SKIPPED +106: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +106: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +106: StringTestCommon_GetValue type parameter std::forward_list > SKIPPED +106: StringTestCommon_GetValue type parameter std::__cxx11::list, std::allocator > > SKIPPED +106: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +106: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +106: StringTestCommon_GetValue type parameter std::__cxx11::list > SKIPPED +106: StringTestCommon_Insert type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Insert type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Insert type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Insert type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Insert type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Insert type parameter seqan::String > > OK +106: StringTestCommon_Insert type parameter seqan::String > > OK +106: StringTestCommon_Insert type parameter seqan::String > > OK +106: StringTestCommon_Insert type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter seqan::String > OK +106: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Insert type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Insert type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Insert type parameter std::vector > OK +106: StringTestCommon_Insert type parameter std::vector > OK +106: StringTestCommon_Insert type parameter std::vector > OK +106: StringTestCommon_Insert type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Insert type parameter std::deque > OK +106: StringTestCommon_Insert type parameter std::deque > OK +106: StringTestCommon_Insert type parameter std::deque > OK +106: StringTestCommon_Insert type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Insert type parameter std::forward_list > OK +106: StringTestCommon_Insert type parameter std::forward_list > OK +106: StringTestCommon_Insert type parameter std::forward_list > OK +106: StringTestCommon_Insert type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Insert type parameter std::__cxx11::list > OK +106: StringTestCommon_Insert type parameter std::__cxx11::list > OK +106: StringTestCommon_Insert type parameter std::__cxx11::list > OK +106: StringTestCommon_InsertValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_InsertValue type parameter seqan::String > > OK +106: StringTestCommon_InsertValue type parameter seqan::String > > OK +106: StringTestCommon_InsertValue type parameter seqan::String > > OK +106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter seqan::String > OK +106: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_InsertValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_InsertValue type parameter std::vector, std::allocator > > OK +106: StringTestCommon_InsertValue type parameter std::vector > OK +106: StringTestCommon_InsertValue type parameter std::vector > OK +106: StringTestCommon_InsertValue type parameter std::vector > OK +106: StringTestCommon_InsertValue type parameter std::deque, std::allocator > > OK +106: StringTestCommon_InsertValue type parameter std::deque > OK +106: StringTestCommon_InsertValue type parameter std::deque > OK +106: StringTestCommon_InsertValue type parameter std::deque > OK +106: StringTestCommon_InsertValue type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_InsertValue type parameter std::forward_list > OK +106: StringTestCommon_InsertValue type parameter std::forward_list > OK +106: StringTestCommon_InsertValue type parameter std::forward_list > OK +106: StringTestCommon_InsertValue type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +106: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +106: StringTestCommon_InsertValue type parameter std::__cxx11::list > OK +106: StringTestCommon_Iter type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Iter type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Iter type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Iter type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Iter type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Iter type parameter seqan::String > > OK +106: StringTestCommon_Iter type parameter seqan::String > > OK +106: StringTestCommon_Iter type parameter seqan::String > > OK +106: StringTestCommon_Iter type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter seqan::String > OK +106: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Iter type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Iter type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Iter type parameter std::vector > OK +106: StringTestCommon_Iter type parameter std::vector > OK +106: StringTestCommon_Iter type parameter std::vector > OK +106: StringTestCommon_Iter type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Iter type parameter std::deque > OK +106: StringTestCommon_Iter type parameter std::deque > OK +106: StringTestCommon_Iter type parameter std::deque > OK +106: StringTestCommon_Iter type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Iter type parameter std::forward_list > OK +106: StringTestCommon_Iter type parameter std::forward_list > OK +106: StringTestCommon_Iter type parameter std::forward_list > OK +106: StringTestCommon_Iter type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Iter type parameter std::__cxx11::list > OK +106: StringTestCommon_Iter type parameter std::__cxx11::list > OK +106: StringTestCommon_Iter type parameter std::__cxx11::list > OK +106: StringTestCommon_Length type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Length type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Length type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Length type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Length type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Length type parameter seqan::String > > OK +106: StringTestCommon_Length type parameter seqan::String > > OK +106: StringTestCommon_Length type parameter seqan::String > > OK +106: StringTestCommon_Length type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter seqan::String > OK +106: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Length type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Length type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Length type parameter std::vector > OK +106: StringTestCommon_Length type parameter std::vector > OK +106: StringTestCommon_Length type parameter std::vector > OK +106: StringTestCommon_Length type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Length type parameter std::deque > OK +106: StringTestCommon_Length type parameter std::deque > OK +106: StringTestCommon_Length type parameter std::deque > OK +106: StringTestCommon_Length type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Length type parameter std::forward_list > OK +106: StringTestCommon_Length type parameter std::forward_list > OK +106: StringTestCommon_Length type parameter std::forward_list > OK +106: StringTestCommon_Length type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Length type parameter std::__cxx11::list > OK +106: StringTestCommon_Length type parameter std::__cxx11::list > OK +106: StringTestCommon_Length type parameter std::__cxx11::list > OK +106: StringTestCommon_MoveValue type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_MoveValue type parameter seqan::String > > OK +106: StringTestCommon_MoveValue type parameter seqan::String > > OK +106: StringTestCommon_MoveValue type parameter seqan::String > > OK +106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter seqan::String > OK +106: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_MoveValue type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_MoveValue type parameter std::vector, std::allocator > > OK +106: StringTestCommon_MoveValue type parameter std::vector > OK +106: StringTestCommon_MoveValue type parameter std::vector > OK +106: StringTestCommon_MoveValue type parameter std::vector > OK +106: StringTestCommon_MoveValue type parameter std::deque, std::allocator > > OK +106: StringTestCommon_MoveValue type parameter std::deque > OK +106: StringTestCommon_MoveValue type parameter std::deque > OK +106: StringTestCommon_MoveValue type parameter std::deque > OK +106: StringTestCommon_MoveValue type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_MoveValue type parameter std::forward_list > OK +106: StringTestCommon_MoveValue type parameter std::forward_list > OK +106: StringTestCommon_MoveValue type parameter std::forward_list > OK +106: StringTestCommon_MoveValue type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +106: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +106: StringTestCommon_MoveValue type parameter std::__cxx11::list > OK +106: StringTestCommon_Replace type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Replace type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Replace type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Replace type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Replace type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Replace type parameter seqan::String > > OK +106: StringTestCommon_Replace type parameter seqan::String > > OK +106: StringTestCommon_Replace type parameter seqan::String > > OK +106: StringTestCommon_Replace type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter seqan::String > OK +106: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Replace type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Replace type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Replace type parameter std::vector > OK +106: StringTestCommon_Replace type parameter std::vector > OK +106: StringTestCommon_Replace type parameter std::vector > OK +106: StringTestCommon_Replace type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Replace type parameter std::deque > OK +106: StringTestCommon_Replace type parameter std::deque > OK +106: StringTestCommon_Replace type parameter std::deque > OK +106: StringTestCommon_Replace type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Replace type parameter std::forward_list > OK +106: StringTestCommon_Replace type parameter std::forward_list > OK +106: StringTestCommon_Replace type parameter std::forward_list > OK +106: StringTestCommon_Replace type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Replace type parameter std::__cxx11::list > OK +106: StringTestCommon_Replace type parameter std::__cxx11::list > OK +106: StringTestCommon_Replace type parameter std::__cxx11::list > OK +106: StringTestCommon_Reserve type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Reserve type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Reserve type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Reserve type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Reserve type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Reserve type parameter seqan::String > > OK +106: StringTestCommon_Reserve type parameter seqan::String > > OK +106: StringTestCommon_Reserve type parameter seqan::String > > OK +106: StringTestCommon_Reserve type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter seqan::String > OK +106: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Reserve type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Reserve type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Reserve type parameter std::vector > OK +106: StringTestCommon_Reserve type parameter std::vector > OK +106: StringTestCommon_Reserve type parameter std::vector > OK +106: StringTestCommon_Reserve type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Reserve type parameter std::deque > OK +106: StringTestCommon_Reserve type parameter std::deque > OK +106: StringTestCommon_Reserve type parameter std::deque > OK +106: StringTestCommon_Reserve type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Reserve type parameter std::forward_list > OK +106: StringTestCommon_Reserve type parameter std::forward_list > OK +106: StringTestCommon_Reserve type parameter std::forward_list > OK +106: StringTestCommon_Reserve type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +106: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +106: StringTestCommon_Reserve type parameter std::__cxx11::list > OK +106: StringTestCommon_Resize type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Resize type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Resize type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Resize type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Resize type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Resize type parameter seqan::String > > OK +106: StringTestCommon_Resize type parameter seqan::String > > OK +106: StringTestCommon_Resize type parameter seqan::String > > OK +106: StringTestCommon_Resize type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter seqan::String > OK +106: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Resize type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Resize type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Resize type parameter std::vector > OK +106: StringTestCommon_Resize type parameter std::vector > OK +106: StringTestCommon_Resize type parameter std::vector > OK +106: StringTestCommon_Resize type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Resize type parameter std::deque > OK +106: StringTestCommon_Resize type parameter std::deque > OK +106: StringTestCommon_Resize type parameter std::deque > OK +106: StringTestCommon_Resize type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Resize type parameter std::forward_list > OK +106: StringTestCommon_Resize type parameter std::forward_list > OK +106: StringTestCommon_Resize type parameter std::forward_list > OK +106: StringTestCommon_Resize type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Resize type parameter std::__cxx11::list > OK +106: StringTestCommon_Resize type parameter std::__cxx11::list > OK +106: StringTestCommon_Resize type parameter std::__cxx11::list > OK +106: StringTestCommon_Value type parameter seqan::String, seqan::External >, 4194304u, 2u> > > OK +106: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Value type parameter seqan::String >, 4194304u, 2u> > > OK +106: StringTestCommon_Value type parameter seqan::String, seqan::MMap >, unsigned long> > > OK +106: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Value type parameter seqan::String >, unsigned long> > > OK +106: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Value type parameter seqan::String, seqan::Packed > > OK +106: StringTestCommon_Value type parameter seqan::String > > OK +106: StringTestCommon_Value type parameter seqan::String > > OK +106: StringTestCommon_Value type parameter seqan::String > > OK +106: StringTestCommon_Value type parameter seqan::String, seqan::Array<100ul> > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String, seqan::Block<4096ul> > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String, seqan::Alloc > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter seqan::String > OK +106: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Value type parameter std::__cxx11::basic_string, std::allocator > OK +106: StringTestCommon_Value type parameter std::vector, std::allocator > > OK +106: StringTestCommon_Value type parameter std::vector > OK +106: StringTestCommon_Value type parameter std::vector > OK +106: StringTestCommon_Value type parameter std::vector > OK +106: StringTestCommon_Value type parameter std::deque, std::allocator > > OK +106: StringTestCommon_Value type parameter std::deque > OK +106: StringTestCommon_Value type parameter std::deque > OK +106: StringTestCommon_Value type parameter std::deque > OK +106: StringTestCommon_Value type parameter std::forward_list, std::allocator > > OK +106: StringTestCommon_Value type parameter std::forward_list > OK +106: StringTestCommon_Value type parameter std::forward_list > OK +106: StringTestCommon_Value type parameter std::forward_list > OK +106: StringTestCommon_Value type parameter std::__cxx11::list, std::allocator > > OK +106: StringTestCommon_Value type parameter std::__cxx11::list > OK +106: StringTestCommon_Value type parameter std::__cxx11::list > OK +106: StringTestCommon_Value type parameter std::__cxx11::list > OK +106: ************************************** +106: Total Tests: 1505 +106: Skipped: 43 +106: Errors: 0 +106: ************************************** +412/414 Test #106: test_test_sequence_v2 ............................................................. Passed 71.20 sec +392: DELETING TEMP DIR /tmp/tmpboz7j56n 392: Executing test for fiona 392: ======================== 392: -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmpoo3sf8mh/reads.illumina.corrected.i1.fa -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmpoo3sf8mh/reads.illumina.corrected.i1.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmpboz7j56n/reads.illumina.corrected.i1.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmpboz7j56n/reads.illumina.corrected.i1.fa 392: OK -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmpoo3sf8mh/reads.illumina.corrected.i2.fa -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmpoo3sf8mh/reads.illumina.corrected.i2.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.sam --post /tmp/tmpboz7j56n/reads.illumina.corrected.i2.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona_illumina -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.illumina.fq /tmp/tmpboz7j56n/reads.illumina.corrected.i2.fa 392: OK -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmpoo3sf8mh/reads.454.corrected.i1.fa -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmpoo3sf8mh/reads.454.corrected.i1.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmpboz7j56n/reads.454.corrected.i1.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 1 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmpboz7j56n/reads.454.corrected.i1.fa 392: OK -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmpoo3sf8mh/reads.454.corrected.i2.fa -392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmpoo3sf8mh/reads.454.corrected.i2.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/compute_gain -g /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/genome.10k.fa --pre /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.sam --post /tmp/tmpboz7j56n/reads.454.corrected.i2.fa +392: /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/fiona -nt 1 -i 2 -g 10000 /build/reproducible-path/seqan2-2.4.0+dfsg/apps/fiona/tests/reads.454.fq /tmp/tmpboz7j56n/reads.454.corrected.i2.fa 392: OK 392: ============================== 392: total tests: 4 392: failed tests: 0 392: successful tests: 4 392: ============================== -414/414 Test #392: app_test_fiona .................................................................... Passed 63.91 sec +413/414 Test #392: app_test_fiona .................................................................... Passed 79.85 sec +391: DELETING TEMP DIR /tmp/tmplelnuuin +391: Executing test for dfi +391: ====================== +391: +391: dfi /tmp/tmplelnuuin/datasets/bbe.fa /tmp/tmplelnuuin/datasets/kjv.fa --support 0.002 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/bbe.fa /tmp/tmplelnuuin/datasets/kjv.fa --minmax 155 31102 --minmax 1 15551 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --minmax 10 2000 --minmax 1 1500 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.0005 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.001 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.01 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.1 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.5 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.9 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 1 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.002 --growth 1 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.002 --growth 2 -m OK +391: dfi /tmp/tmplelnuuin/datasets/CompWindows.fa /tmp/tmplelnuuin/datasets/CompNonWindows.fa --support 0.002 --growth 5 -m OK +391: dfi /tmp/tmplelnuuin/datasets/fasta1.fa /tmp/tmplelnuuin/datasets/fasta2.fa --support 1 --growth 2 OK +391: ============================== +391: total tests: 15 +391: failed tests: 0 +391: successful tests: 15 +391: ============================== +414/414 Test #391: app_test_dfi ...................................................................... Passed 84.15 sec 100% tests passed, 0 tests failed out of 414 -Total Test time (real) = 67.69 sec +Total Test time (real) = 88.86 sec make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' - rm -fr -- /tmp/dh-xdg-rundir-HNbhJ3m3 + rm -fr -- /tmp/dh-xdg-rundir-dc2GeFz2 create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/seqan-apps.substvars debian/libseqan2-dev.substvars @@ -314244,7 +314280,7 @@ make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_auto_install --indep -B build --destdir=/build/reproducible-path/seqan2-2.4.0+dfsg/debian/libseqan2-dev/ install -m0755 -d /build/reproducible-path/seqan2-2.4.0\+dfsg/debian/libseqan2-dev - cd build && make -j40 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/libseqan2-dev AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd build && make -j42 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/libseqan2-dev AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/build' /usr/bin/cmake -S/build/reproducible-path/seqan2-2.4.0+dfsg -B/build/reproducible-path/seqan2-2.4.0+dfsg/build --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -314993,7 +315029,7 @@ make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_auto_install -Nlibseqan2-dev install -m0755 -d /build/reproducible-path/seqan2-2.4.0\+dfsg/debian/tmp - cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/seqan2-2.4.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/seqan2-2.4.0+dfsg -B/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -315145,8 +315181,8 @@ /usr/bin/gmake -f apps/sak/CMakeFiles/sak_doc.dir/build.make apps/sak/CMakeFiles/sak_doc.dir/build gmake[5]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [100%] Generating README.sak.txt -cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak && ../../bin/sak --export-help=txt > README.sak.txt [100%] Generating sak.1 +cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak && ../../bin/sak --export-help=txt > README.sak.txt cd /build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/apps/sak && ../../bin/sak --export-help=man > sak.1 gmake[5]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu' [100%] Built target sak_doc @@ -315246,12 +315282,12 @@ chmod -R u\+rw,go=rX debian/libseqan2-dev/usr/share/doc install -p -m0644 debian/copyright debian/libseqan2-dev/usr/share/doc/libseqan2-dev/copyright dh_installchangelogs - install -m0755 -d debian/libseqan2-dev/usr/share/doc/libseqan2-dev - install -p -m0644 debian/.debhelper/generated/libseqan2-dev/dh_installchangelogs.dch.trimmed debian/libseqan2-dev/usr/share/doc/libseqan2-dev/changelog.Debian - install -p -m0644 ./CHANGELOG.rst debian/libseqan2-dev/usr/share/doc/libseqan2-dev/changelog install -m0755 -d debian/seqan-apps/usr/share/doc/seqan-apps install -p -m0644 debian/.debhelper/generated/seqan-apps/dh_installchangelogs.dch.trimmed debian/seqan-apps/usr/share/doc/seqan-apps/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/seqan-apps/usr/share/doc/seqan-apps/changelog + install -m0755 -d debian/libseqan2-dev/usr/share/doc/libseqan2-dev + install -p -m0644 debian/.debhelper/generated/libseqan2-dev/dh_installchangelogs.dch.trimmed debian/libseqan2-dev/usr/share/doc/libseqan2-dev/changelog.Debian + install -p -m0644 ./CHANGELOG.rst debian/libseqan2-dev/usr/share/doc/libseqan2-dev/changelog rm -f debian/libseqan2-dev.debhelper.log debian/rules override_dh_installman-arch make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg' @@ -315351,50 +315387,50 @@ man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/tree_recon.1 man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/yara_indexer.1 man-recode --to-code UTF-8 --suffix .dh-new debian/seqan-apps/usr/share/man/man1/yara_mapper.1 - mv debian/seqan-apps/usr/share/man/man1/pair_align.1.dh-new debian/seqan-apps/usr/share/man/man1/pair_align.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/pair_align.1 - mv debian/seqan-apps/usr/share/man/man1/insegt.1.dh-new debian/seqan-apps/usr/share/man/man1/insegt.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/insegt.1 - mv debian/seqan-apps/usr/share/man/man1/mason_genome.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_genome.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_genome.1 - mv debian/seqan-apps/usr/share/man/man1/micro_razers.1.dh-new debian/seqan-apps/usr/share/man/man1/micro_razers.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/micro_razers.1 - mv debian/seqan-apps/usr/share/man/man1/stellar.1.dh-new debian/seqan-apps/usr/share/man/man1/stellar.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/stellar.1 mv debian/seqan-apps/usr/share/man/man1/mason_methylation.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_methylation.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_methylation.1 - mv debian/seqan-apps/usr/share/man/man1/sak.1.dh-new debian/seqan-apps/usr/share/man/man1/sak.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/sak.1 + mv debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 mv debian/seqan-apps/usr/share/man/man1/alf.1.dh-new debian/seqan-apps/usr/share/man/man1/alf.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/alf.1 - mv debian/seqan-apps/usr/share/man/man1/yara_indexer.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_indexer.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/yara_indexer.1 - mv debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1.dh-new debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 + mv debian/seqan-apps/usr/share/man/man1/mason_genome.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_genome.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_genome.1 mv debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_prepare_sam.1 - mv debian/seqan-apps/usr/share/man/man1/razers3.1.dh-new debian/seqan-apps/usr/share/man/man1/razers3.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/razers3.1 - mv debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_evaluate.1 - mv debian/seqan-apps/usr/share/man/man1/gustaf.1.dh-new debian/seqan-apps/usr/share/man/man1/gustaf.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/gustaf.1 + mv debian/seqan-apps/usr/share/man/man1/pair_align.1.dh-new debian/seqan-apps/usr/share/man/man1/pair_align.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/pair_align.1 mv debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_frag_sequencing.1 - mv debian/seqan-apps/usr/share/man/man1/splazers.1.dh-new debian/seqan-apps/usr/share/man/man1/splazers.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/splazers.1 - mv debian/seqan-apps/usr/share/man/man1/mason_materializer.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_materializer.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_materializer.1 - mv debian/seqan-apps/usr/share/man/man1/razers.1.dh-new debian/seqan-apps/usr/share/man/man1/razers.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/razers.1 + mv debian/seqan-apps/usr/share/man/man1/sak.1.dh-new debian/seqan-apps/usr/share/man/man1/sak.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/sak.1 mv debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1.dh-new debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/rabema_build_gold_standard.1 - mv debian/seqan-apps/usr/share/man/man1/yara_mapper.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_mapper.1 - chmod 0644 -- debian/seqan-apps/usr/share/man/man1/yara_mapper.1 + mv debian/seqan-apps/usr/share/man/man1/splazers.1.dh-new debian/seqan-apps/usr/share/man/man1/splazers.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/splazers.1 mv debian/seqan-apps/usr/share/man/man1/snp_store.1.dh-new debian/seqan-apps/usr/share/man/man1/snp_store.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/snp_store.1 + mv debian/seqan-apps/usr/share/man/man1/razers3.1.dh-new debian/seqan-apps/usr/share/man/man1/razers3.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/razers3.1 + mv debian/seqan-apps/usr/share/man/man1/gustaf.1.dh-new debian/seqan-apps/usr/share/man/man1/gustaf.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/gustaf.1 + mv debian/seqan-apps/usr/share/man/man1/stellar.1.dh-new debian/seqan-apps/usr/share/man/man1/stellar.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/stellar.1 + mv debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1.dh-new debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/seqan_tcoffee.1 + mv debian/seqan-apps/usr/share/man/man1/razers.1.dh-new debian/seqan-apps/usr/share/man/man1/razers.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/razers.1 mv debian/seqan-apps/usr/share/man/man1/tree_recon.1.dh-new debian/seqan-apps/usr/share/man/man1/tree_recon.1 chmod 0644 -- debian/seqan-apps/usr/share/man/man1/tree_recon.1 + mv debian/seqan-apps/usr/share/man/man1/micro_razers.1.dh-new debian/seqan-apps/usr/share/man/man1/micro_razers.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/micro_razers.1 + mv debian/seqan-apps/usr/share/man/man1/yara_indexer.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_indexer.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/yara_indexer.1 + mv debian/seqan-apps/usr/share/man/man1/insegt.1.dh-new debian/seqan-apps/usr/share/man/man1/insegt.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/insegt.1 + mv debian/seqan-apps/usr/share/man/man1/yara_mapper.1.dh-new debian/seqan-apps/usr/share/man/man1/yara_mapper.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/yara_mapper.1 + mv debian/seqan-apps/usr/share/man/man1/mason_materializer.1.dh-new debian/seqan-apps/usr/share/man/man1/mason_materializer.1 + chmod 0644 -- debian/seqan-apps/usr/share/man/man1/mason_materializer.1 make[1]: Leaving directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_installman -Nseqan-apps dh_perl @@ -315402,50 +315438,50 @@ debian/rules override_dh_link-arch make[1]: Entering directory '/build/reproducible-path/seqan2-2.4.0+dfsg' dh_link --arch - rm -f debian/seqan-apps/usr/bin/yara_indexer - ln -s ../lib/seqan/bin/yara_indexer debian/seqan-apps/usr/bin/yara_indexer - rm -f debian/seqan-apps/usr/bin/gustaf - ln -s ../lib/seqan/bin/gustaf debian/seqan-apps/usr/bin/gustaf - rm -f debian/seqan-apps/usr/bin/snp_store - ln -s ../lib/seqan/bin/snp_store debian/seqan-apps/usr/bin/snp_store - rm -f debian/seqan-apps/usr/bin/mason_methylation - ln -s ../lib/seqan/bin/mason_methylation debian/seqan-apps/usr/bin/mason_methylation - rm -f debian/seqan-apps/usr/bin/tree_recon - ln -s ../lib/seqan/bin/tree_recon debian/seqan-apps/usr/bin/tree_recon - rm -f debian/seqan-apps/usr/bin/rabema_build_gold_standard - ln -s ../lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/bin/rabema_build_gold_standard - rm -f debian/seqan-apps/usr/bin/alf - ln -s ../lib/seqan/bin/alf debian/seqan-apps/usr/bin/alf - rm -f debian/seqan-apps/usr/bin/pair_align - ln -s ../lib/seqan/bin/pair_align debian/seqan-apps/usr/bin/pair_align rm -f debian/seqan-apps/usr/bin/seqan_tcoffee ln -s ../lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/bin/seqan_tcoffee + rm -f debian/seqan-apps/usr/bin/razers3 + ln -s ../lib/seqan/bin/razers3 debian/seqan-apps/usr/bin/razers3 + rm -f debian/seqan-apps/usr/bin/splazers + ln -s ../lib/seqan/bin/splazers debian/seqan-apps/usr/bin/splazers + rm -f debian/seqan-apps/usr/bin/alf + ln -s ../lib/seqan/bin/alf debian/seqan-apps/usr/bin/alf + rm -f debian/seqan-apps/usr/bin/rabema_evaluate + ln -s ../lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/bin/rabema_evaluate + rm -f debian/seqan-apps/usr/bin/rabema_prepare_sam + ln -s ../lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/bin/rabema_prepare_sam + rm -f debian/seqan-apps/usr/bin/mason_genome + ln -s ../lib/seqan/bin/mason_genome debian/seqan-apps/usr/bin/mason_genome + rm -f debian/seqan-apps/usr/bin/mason_methylation + ln -s ../lib/seqan/bin/mason_methylation debian/seqan-apps/usr/bin/mason_methylation + rm -f debian/seqan-apps/usr/bin/mason_materializer + ln -s ../lib/seqan/bin/mason_materializer debian/seqan-apps/usr/bin/mason_materializer rm -f debian/seqan-apps/usr/bin/yara_mapper ln -s ../lib/seqan/bin/yara_mapper debian/seqan-apps/usr/bin/yara_mapper + rm -f debian/seqan-apps/usr/bin/pair_align + ln -s ../lib/seqan/bin/pair_align debian/seqan-apps/usr/bin/pair_align rm -f debian/seqan-apps/usr/bin/micro_razers ln -s ../lib/seqan/bin/micro_razers debian/seqan-apps/usr/bin/micro_razers - rm -f debian/seqan-apps/usr/bin/insegt - ln -s ../lib/seqan/bin/insegt debian/seqan-apps/usr/bin/insegt - rm -f debian/seqan-apps/usr/bin/mason_genome - ln -s ../lib/seqan/bin/mason_genome debian/seqan-apps/usr/bin/mason_genome - rm -f debian/seqan-apps/usr/bin/rabema_prepare_sam - ln -s ../lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/bin/rabema_prepare_sam - rm -f debian/seqan-apps/usr/bin/razers3 - ln -s ../lib/seqan/bin/razers3 debian/seqan-apps/usr/bin/razers3 - rm -f debian/seqan-apps/usr/bin/mason_frag_sequencing - ln -s ../lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/bin/mason_frag_sequencing + rm -f debian/seqan-apps/usr/bin/tree_recon + ln -s ../lib/seqan/bin/tree_recon debian/seqan-apps/usr/bin/tree_recon + rm -f debian/seqan-apps/usr/bin/razers + ln -s ../lib/seqan/bin/razers debian/seqan-apps/usr/bin/razers rm -f debian/seqan-apps/usr/bin/stellar ln -s ../lib/seqan/bin/stellar debian/seqan-apps/usr/bin/stellar - rm -f debian/seqan-apps/usr/bin/rabema_evaluate - ln -s ../lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/bin/rabema_evaluate - rm -f debian/seqan-apps/usr/bin/splazers - ln -s ../lib/seqan/bin/splazers debian/seqan-apps/usr/bin/splazers + rm -f debian/seqan-apps/usr/bin/insegt + ln -s ../lib/seqan/bin/insegt debian/seqan-apps/usr/bin/insegt + rm -f debian/seqan-apps/usr/bin/rabema_build_gold_standard + ln -s ../lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/bin/rabema_build_gold_standard + rm -f debian/seqan-apps/usr/bin/yara_indexer + ln -s ../lib/seqan/bin/yara_indexer debian/seqan-apps/usr/bin/yara_indexer rm -f debian/seqan-apps/usr/bin/sak ln -s ../lib/seqan/bin/sak debian/seqan-apps/usr/bin/sak - rm -f debian/seqan-apps/usr/bin/razers - ln -s ../lib/seqan/bin/razers debian/seqan-apps/usr/bin/razers - rm -f debian/seqan-apps/usr/bin/mason_materializer - ln -s ../lib/seqan/bin/mason_materializer debian/seqan-apps/usr/bin/mason_materializer + rm -f debian/seqan-apps/usr/bin/snp_store + ln -s ../lib/seqan/bin/snp_store debian/seqan-apps/usr/bin/snp_store + rm -f debian/seqan-apps/usr/bin/gustaf + ln -s ../lib/seqan/bin/gustaf debian/seqan-apps/usr/bin/gustaf + rm -f debian/seqan-apps/usr/bin/mason_frag_sequencing + ln -s ../lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/bin/mason_frag_sequencing rm -f debian/seqan-apps/usr/bin/yara_mapper ln -s ../lib/seqan/bin/yara_mapper debian/seqan-apps/usr/bin/yara_mapper rm -f debian/seqan-apps/usr/bin/yara_indexer @@ -315499,8 +315535,8 @@ dh_link -Nseqan-apps dh_strip_nondeterminism Using 1705323437 as canonical time - Normalizing debian/seqan-apps/usr/share/doc/seqan-apps/ngs_roi/R/ngsroi_0.1.zip using File::StripNondeterminism::handlers::zip Normalizing debian/seqan-apps/usr/share/doc/seqan-apps/ngs_roi/R/ngsroi_0.1.tar.gz using File::StripNondeterminism::handlers::gzip + Normalizing debian/seqan-apps/usr/share/doc/seqan-apps/ngs_roi/R/ngsroi_0.1.zip using File::StripNondeterminism::handlers::zip dh_compress cd debian/seqan-apps cd debian/libseqan2-dev @@ -315538,121 +315574,91 @@ objcopy --compress-debug-sections debian/seqan-apps/usr/lib/debug/.dwz/x86_64-linux-gnu/seqan-apps.debug chmod 0644 -- debian/seqan-apps/usr/lib/debug/.dwz/x86_64-linux-gnu/seqan-apps.debug dh_strip -a - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95/67117ab9d2db2f9845702eca330b4baccc4def.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95/67117ab9d2db2f9845702eca330b4baccc4def.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/bam2roi - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95/67117ab9d2db2f9845702eca330b4baccc4def.debug debian/seqan-apps/usr/lib/seqan/bin/bam2roi - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25/eb809f66478e26fe8cf7144da25d0bc404ae0a.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25/eb809f66478e26fe8cf7144da25d0bc404ae0a.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sam2matrix - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25/eb809f66478e26fe8cf7144da25d0bc404ae0a.debug debian/seqan-apps/usr/lib/seqan/bin/sam2matrix + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/17acb1ccd7fa20fcb8dbfe87a1a2a758923e27.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/17acb1ccd7fa20fcb8dbfe87a1a2a758923e27.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/17acb1ccd7fa20fcb8dbfe87a1a2a758923e27.debug debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9/f5ee73eb3543e5db161f384e92d41958d774db.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9/f5ee73eb3543e5db161f384e92d41958d774db.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_splicing + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9/f5ee73eb3543e5db161f384e92d41958d774db.debug debian/seqan-apps/usr/lib/seqan/bin/mason_splicing + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fiona debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b/b979c560996a1130f7ff7098893c308a259783.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b/b979c560996a1130f7ff7098893c308a259783.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b/b979c560996a1130f7ff7098893c308a259783.debug debian/seqan-apps/usr/lib/seqan/bin/fiona + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/dfi debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8/fba99cb568ade08fcbfe4ac2e7375bfef32137.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8/fba99cb568ade08fcbfe4ac2e7375bfef32137.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/dfi + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8/fba99cb568ade08fcbfe4ac2e7375bfef32137.debug debian/seqan-apps/usr/lib/seqan/bin/dfi install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/92798c759aff05fd00fe1bd5d982a20e9befb4.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/92798c759aff05fd00fe1bd5d982a20e9befb4.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/s4_join objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/92798c759aff05fd00fe1bd5d982a20e9befb4.debug debian/seqan-apps/usr/lib/seqan/bin/s4_join - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41/3cf33c9188055fbae3fee9008916ea68df0f02.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41/3cf33c9188055fbae3fee9008916ea68df0f02.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/param_chooser - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41/3cf33c9188055fbae3fee9008916ea68df0f02.debug debian/seqan-apps/usr/lib/seqan/bin/param_chooser - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90/8016da5759d2226f9bba1e2c4207b933009109.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90/8016da5759d2226f9bba1e2c4207b933009109.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_materializer - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90/8016da5759d2226f9bba1e2c4207b933009109.debug debian/seqan-apps/usr/lib/seqan/bin/mason_materializer - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/8febd1158472d87f17ed600c54194b025ccda2.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/8febd1158472d87f17ed600c54194b025ccda2.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/8febd1158472d87f17ed600c54194b025ccda2.debug debian/seqan-apps/usr/lib/seqan/bin/razers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/84a912733b34197ff79c0eda5873fd74770979.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/84a912733b34197ff79c0eda5873fd74770979.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/84a912733b34197ff79c0eda5873fd74770979.debug debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77/003c1c2f57aa10de80bcdab97a7c6df69d5eae.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77/003c1c2f57aa10de80bcdab97a7c6df69d5eae.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77/003c1c2f57aa10de80bcdab97a7c6df69d5eae.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34/f464b79620fdf8274ad2ff0b5582c0e8f87fc5.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34/f464b79620fdf8274ad2ff0b5582c0e8f87fc5.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/snp_store + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34/f464b79620fdf8274ad2ff0b5582c0e8f87fc5.debug debian/seqan-apps/usr/lib/seqan/bin/snp_store install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sak debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99/94f8bec47a03a9d9b959526f7d28b3ecb78520.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99/94f8bec47a03a9d9b959526f7d28b3ecb78520.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sak objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/99/94f8bec47a03a9d9b959526f7d28b3ecb78520.debug debian/seqan-apps/usr/lib/seqan/bin/sak - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b/9ed17918c4edbec13a1de6a3e8f0131b945576.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b/9ed17918c4edbec13a1de6a3e8f0131b945576.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b/9ed17918c4edbec13a1de6a3e8f0131b945576.debug debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/splazers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab/2cb768e1de83b7c83ec6e93d081351070f4b39.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab/2cb768e1de83b7c83ec6e93d081351070f4b39.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/splazers - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab/2cb768e1de83b7c83ec6e93d081351070f4b39.debug debian/seqan-apps/usr/lib/seqan/bin/splazers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18/ea34cc5dcfbb0071f2efbeaa09f6203879a1b8.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18/ea34cc5dcfbb0071f2efbeaa09f6203879a1b8.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18/ea34cc5dcfbb0071f2efbeaa09f6203879a1b8.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1/6b20ab15362115cce85e69314b46e8900769b9.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1/6b20ab15362115cce85e69314b46e8900769b9.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/yara_indexer + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1/6b20ab15362115cce85e69314b46e8900769b9.debug debian/seqan-apps/usr/lib/seqan/bin/yara_indexer + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b/0eb0fe0ff4f9d7623ee66865171223a6bd0a46.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b/0eb0fe0ff4f9d7623ee66865171223a6bd0a46.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b/0eb0fe0ff4f9d7623ee66865171223a6bd0a46.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25/eb809f66478e26fe8cf7144da25d0bc404ae0a.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25/eb809f66478e26fe8cf7144da25d0bc404ae0a.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sam2matrix + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/25/eb809f66478e26fe8cf7144da25d0bc404ae0a.debug debian/seqan-apps/usr/lib/seqan/bin/sam2matrix + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/casbar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35/4da33907bbbe125597de3216e0eccf637fe2c8.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35/4da33907bbbe125597de3216e0eccf637fe2c8.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/casbar + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35/4da33907bbbe125597de3216e0eccf637fe2c8.debug debian/seqan-apps/usr/lib/seqan/bin/casbar + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/insegt debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/13e176298645f9b3b97b4908ea4a809e9bb0a0.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/13e176298645f9b3b97b4908ea4a809e9bb0a0.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/insegt + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/13e176298645f9b3b97b4908ea4a809e9bb0a0.debug debian/seqan-apps/usr/lib/seqan/bin/insegt install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3a objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/stellar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3a/51b18668c8ef556fe90e27408529913ace3a20.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3a/51b18668c8ef556fe90e27408529913ace3a20.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/stellar objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3a/51b18668c8ef556fe90e27408529913ace3a20.debug debian/seqan-apps/usr/lib/seqan/bin/stellar - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/9e34766744bd1e42fdf9f079f138a191a687ee.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/9e34766744bd1e42fdf9f079f138a191a687ee.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_simulator - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/9e34766744bd1e42fdf9f079f138a191a687ee.debug debian/seqan-apps/usr/lib/seqan/bin/mason_simulator - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/17acb1ccd7fa20fcb8dbfe87a1a2a758923e27.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/17acb1ccd7fa20fcb8dbfe87a1a2a758923e27.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2b/17acb1ccd7fa20fcb8dbfe87a1a2a758923e27.debug debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/samcat debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/4b2d2cac2606995fbe0e482ec1a48df8e2896a.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/4b2d2cac2606995fbe0e482ec1a48df8e2896a.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/samcat - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/4b2d2cac2606995fbe0e482ec1a48df8e2896a.debug debian/seqan-apps/usr/lib/seqan/bin/samcat - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/a2f35e1a666204ca70ffbacf1aa33f486d5545.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/a2f35e1a666204ca70ffbacf1aa33f486d5545.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/a2f35e1a666204ca70ffbacf1aa33f486d5545.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/8febd1158472d87f17ed600c54194b025ccda2.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/8febd1158472d87f17ed600c54194b025ccda2.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/7c/8febd1158472d87f17ed600c54194b025ccda2.debug debian/seqan-apps/usr/lib/seqan/bin/razers install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6e objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6e/27b73af5298e731e0c60b31aa25fda8f566f90.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6e/27b73af5298e731e0c60b31aa25fda8f566f90.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_variator objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6e/27b73af5298e731e0c60b31aa25fda8f566f90.debug debian/seqan-apps/usr/lib/seqan/bin/mason_variator - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64/7b43108859670ed5914bf5b95c26bdebdd5362.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64/7b43108859670ed5914bf5b95c26bdebdd5362.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers3 - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64/7b43108859670ed5914bf5b95c26bdebdd5362.debug debian/seqan-apps/usr/lib/seqan/bin/razers3 - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3/6b66b519345480ee4a94d5ac2e077ab6d46329.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3/6b66b519345480ee4a94d5ac2e077ab6d46329.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3/6b66b519345480ee4a94d5ac2e077ab6d46329.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fiona debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b/b979c560996a1130f7ff7098893c308a259783.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b/b979c560996a1130f7ff7098893c308a259783.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fiona - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/8b/b979c560996a1130f7ff7098893c308a259783.debug debian/seqan-apps/usr/lib/seqan/bin/fiona - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73/104680996301467f6158a624f736882f29417e.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73/104680996301467f6158a624f736882f29417e.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_genome - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73/104680996301467f6158a624f736882f29417e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_genome - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c/440940496a386fc76574fb7fa2007364c17c87.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c/440940496a386fc76574fb7fa2007364c17c87.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rep_sep - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c/440940496a386fc76574fb7fa2007364c17c87.debug debian/seqan-apps/usr/lib/seqan/bin/rep_sep - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/insegt debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/13e176298645f9b3b97b4908ea4a809e9bb0a0.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/13e176298645f9b3b97b4908ea4a809e9bb0a0.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/insegt - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/cb/13e176298645f9b3b97b4908ea4a809e9bb0a0.debug debian/seqan-apps/usr/lib/seqan/bin/insegt + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f/91598becf03fb2cb171e010e0f4341595cbb68.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f/91598becf03fb2cb171e010e0f4341595cbb68.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/tree_recon + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f/91598becf03fb2cb171e010e0f4341595cbb68.debug debian/seqan-apps/usr/lib/seqan/bin/tree_recon install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ed objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ed/a734fc5a81bab2cef94a2de06abecbdbcc5e65.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ed/a734fc5a81bab2cef94a2de06abecbdbcc5e65.debug @@ -315663,106 +315669,136 @@ chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/72/46b9402cb190302335aec3253fc9373cc11ebf.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/micro_razers objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/72/46b9402cb190302335aec3253fc9373cc11ebf.debug debian/seqan-apps/usr/lib/seqan/bin/micro_razers - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b/f0554185f052599f0dc64a113cd83e5df6dd86.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b/f0554185f052599f0dc64a113cd83e5df6dd86.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/yara_mapper - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b/f0554185f052599f0dc64a113cd83e5df6dd86.debug debian/seqan-apps/usr/lib/seqan/bin/yara_mapper - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9/f5ee73eb3543e5db161f384e92d41958d774db.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9/f5ee73eb3543e5db161f384e92d41958d774db.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_splicing - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d9/f5ee73eb3543e5db161f384e92d41958d774db.debug debian/seqan-apps/usr/lib/seqan/bin/mason_splicing - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/2c62a99294e372c95010b54f203d56cc6cbe77.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/2c62a99294e372c95010b54f203d56cc6cbe77.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/2c62a99294e372c95010b54f203d56cc6cbe77.debug debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/casbar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35/4da33907bbbe125597de3216e0eccf637fe2c8.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35/4da33907bbbe125597de3216e0eccf637fe2c8.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/casbar - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/35/4da33907bbbe125597de3216e0eccf637fe2c8.debug debian/seqan-apps/usr/lib/seqan/bin/casbar install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e7 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e7/00d9b349a06e60c1eb5426ec74347924b9cd2d.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e7/00d9b349a06e60c1eb5426ec74347924b9cd2d.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/pair_align objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e7/00d9b349a06e60c1eb5426ec74347924b9cd2d.debug debian/seqan-apps/usr/lib/seqan/bin/pair_align - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16/231966408a459736e7d63ed7d0f614e1af220c.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16/231966408a459736e7d63ed7d0f614e1af220c.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqcons2 - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16/231966408a459736e7d63ed7d0f614e1af220c.debug debian/seqan-apps/usr/lib/seqan/bin/seqcons2 - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/alf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/51ef6a52b9b5f75be9886952e9840431ebaf4f.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/51ef6a52b9b5f75be9886952e9840431ebaf4f.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/alf - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/51ef6a52b9b5f75be9886952e9840431ebaf4f.debug debian/seqan-apps/usr/lib/seqan/bin/alf - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b/0eb0fe0ff4f9d7623ee66865171223a6bd0a46.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b/0eb0fe0ff4f9d7623ee66865171223a6bd0a46.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/5b/0eb0fe0ff4f9d7623ee66865171223a6bd0a46.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/four2three debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12/6e42e26241c2b05a09deb02aaac6d067354e91.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12/6e42e26241c2b05a09deb02aaac6d067354e91.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/four2three - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12/6e42e26241c2b05a09deb02aaac6d067354e91.debug debian/seqan-apps/usr/lib/seqan/bin/four2three - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f/91598becf03fb2cb171e010e0f4341595cbb68.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f/91598becf03fb2cb171e010e0f4341595cbb68.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/tree_recon - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/2f/91598becf03fb2cb171e010e0f4341595cbb68.debug debian/seqan-apps/usr/lib/seqan/bin/tree_recon + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b/f0554185f052599f0dc64a113cd83e5df6dd86.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b/f0554185f052599f0dc64a113cd83e5df6dd86.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/yara_mapper + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/4b/f0554185f052599f0dc64a113cd83e5df6dd86.debug debian/seqan-apps/usr/lib/seqan/bin/yara_mapper + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/9e34766744bd1e42fdf9f079f138a191a687ee.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/9e34766744bd1e42fdf9f079f138a191a687ee.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/01/9e34766744bd1e42fdf9f079f138a191a687ee.debug debian/seqan-apps/usr/lib/seqan/bin/mason_simulator + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62/d46a5bd0551218f60943624850aac78d4c3450.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62/d46a5bd0551218f60943624850aac78d4c3450.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/compute_gain + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62/d46a5bd0551218f60943624850aac78d4c3450.debug debian/seqan-apps/usr/lib/seqan/bin/compute_gain + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39/772982458a98e139afefd5bc17f26cdae754c0.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39/772982458a98e139afefd5bc17f26cdae754c0.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/s4_search + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39/772982458a98e139afefd5bc17f26cdae754c0.debug debian/seqan-apps/usr/lib/seqan/bin/s4_search + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sgip debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92/8c2d373ac1139367a6e231e78fb70f3a5ae6ed.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92/8c2d373ac1139367a6e231e78fb70f3a5ae6ed.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sgip + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92/8c2d373ac1139367a6e231e78fb70f3a5ae6ed.debug debian/seqan-apps/usr/lib/seqan/bin/sgip + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90/8016da5759d2226f9bba1e2c4207b933009109.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90/8016da5759d2226f9bba1e2c4207b933009109.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_materializer + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/90/8016da5759d2226f9bba1e2c4207b933009109.debug debian/seqan-apps/usr/lib/seqan/bin/mason_materializer install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0f objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0f/fd65c0ca42dbcc5634f68ac6aea707d9d4c639.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0f/fd65c0ca42dbcc5634f68ac6aea707d9d4c639.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/0f/fd65c0ca42dbcc5634f68ac6aea707d9d4c639.debug debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41/3cf33c9188055fbae3fee9008916ea68df0f02.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41/3cf33c9188055fbae3fee9008916ea68df0f02.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/param_chooser + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/41/3cf33c9188055fbae3fee9008916ea68df0f02.debug debian/seqan-apps/usr/lib/seqan/bin/param_chooser + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/samcat debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/4b2d2cac2606995fbe0e482ec1a48df8e2896a.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/4b2d2cac2606995fbe0e482ec1a48df8e2896a.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/samcat + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/e5/4b2d2cac2606995fbe0e482ec1a48df8e2896a.debug debian/seqan-apps/usr/lib/seqan/bin/samcat install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/07 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/07/37dfa04f8d6f6e8d12014166edba22e0347306.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/07/37dfa04f8d6f6e8d12014166edba22e0347306.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_methylation objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/07/37dfa04f8d6f6e8d12014166edba22e0347306.debug debian/seqan-apps/usr/lib/seqan/bin/mason_methylation - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/dfi debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8/fba99cb568ade08fcbfe4ac2e7375bfef32137.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8/fba99cb568ade08fcbfe4ac2e7375bfef32137.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/dfi - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/a8/fba99cb568ade08fcbfe4ac2e7375bfef32137.debug debian/seqan-apps/usr/lib/seqan/bin/dfi - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34/f464b79620fdf8274ad2ff0b5582c0e8f87fc5.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34/f464b79620fdf8274ad2ff0b5582c0e8f87fc5.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/snp_store - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/34/f464b79620fdf8274ad2ff0b5582c0e8f87fc5.debug debian/seqan-apps/usr/lib/seqan/bin/snp_store - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39/772982458a98e139afefd5bc17f26cdae754c0.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39/772982458a98e139afefd5bc17f26cdae754c0.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/s4_search - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/39/772982458a98e139afefd5bc17f26cdae754c0.debug debian/seqan-apps/usr/lib/seqan/bin/s4_search - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62/d46a5bd0551218f60943624850aac78d4c3450.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62/d46a5bd0551218f60943624850aac78d4c3450.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/compute_gain - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/62/d46a5bd0551218f60943624850aac78d4c3450.debug debian/seqan-apps/usr/lib/seqan/bin/compute_gain + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73/104680996301467f6158a624f736882f29417e.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73/104680996301467f6158a624f736882f29417e.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/mason_genome + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/73/104680996301467f6158a624f736882f29417e.debug debian/seqan-apps/usr/lib/seqan/bin/mason_genome + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3/6b66b519345480ee4a94d5ac2e077ab6d46329.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3/6b66b519345480ee4a94d5ac2e077ab6d46329.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d3/6b66b519345480ee4a94d5ac2e077ab6d46329.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/four2three debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12/6e42e26241c2b05a09deb02aaac6d067354e91.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12/6e42e26241c2b05a09deb02aaac6d067354e91.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/four2three + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/12/6e42e26241c2b05a09deb02aaac6d067354e91.debug debian/seqan-apps/usr/lib/seqan/bin/four2three + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18/ea34cc5dcfbb0071f2efbeaa09f6203879a1b8.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18/ea34cc5dcfbb0071f2efbeaa09f6203879a1b8.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/18/ea34cc5dcfbb0071f2efbeaa09f6203879a1b8.debug debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/alf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/51ef6a52b9b5f75be9886952e9840431ebaf4f.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/51ef6a52b9b5f75be9886952e9840431ebaf4f.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/alf + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/56/51ef6a52b9b5f75be9886952e9840431ebaf4f.debug debian/seqan-apps/usr/lib/seqan/bin/alf + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/splazers debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab/2cb768e1de83b7c83ec6e93d081351070f4b39.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab/2cb768e1de83b7c83ec6e93d081351070f4b39.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/splazers + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/ab/2cb768e1de83b7c83ec6e93d081351070f4b39.debug debian/seqan-apps/usr/lib/seqan/bin/splazers + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b/9ed17918c4edbec13a1de6a3e8f0131b945576.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b/9ed17918c4edbec13a1de6a3e8f0131b945576.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6b/9ed17918c4edbec13a1de6a3e8f0131b945576.debug debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43 objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/bisar debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43/67b4f4fc289142e6cf59d88b31c2d3a123a6a5.debug chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43/67b4f4fc289142e6cf59d88b31c2d3a123a6a5.debug strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/bisar objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/43/67b4f4fc289142e6cf59d88b31c2d3a123a6a5.debug debian/seqan-apps/usr/lib/seqan/bin/bisar - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77/003c1c2f57aa10de80bcdab97a7c6df69d5eae.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77/003c1c2f57aa10de80bcdab97a7c6df69d5eae.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/77/003c1c2f57aa10de80bcdab97a7c6df69d5eae.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1/6b20ab15362115cce85e69314b46e8900769b9.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1/6b20ab15362115cce85e69314b46e8900769b9.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/yara_indexer - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/d1/6b20ab15362115cce85e69314b46e8900769b9.debug debian/seqan-apps/usr/lib/seqan/bin/yara_indexer - install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92 - objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/sgip debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92/8c2d373ac1139367a6e231e78fb70f3a5ae6ed.debug - chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92/8c2d373ac1139367a6e231e78fb70f3a5ae6ed.debug - strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/sgip - objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/92/8c2d373ac1139367a6e231e78fb70f3a5ae6ed.debug debian/seqan-apps/usr/lib/seqan/bin/sgip + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64/7b43108859670ed5914bf5b95c26bdebdd5362.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64/7b43108859670ed5914bf5b95c26bdebdd5362.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/razers3 + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/64/7b43108859670ed5914bf5b95c26bdebdd5362.debug debian/seqan-apps/usr/lib/seqan/bin/razers3 + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/84a912733b34197ff79c0eda5873fd74770979.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/84a912733b34197ff79c0eda5873fd74770979.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/6d/84a912733b34197ff79c0eda5873fd74770979.debug debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/2c62a99294e372c95010b54f203d56cc6cbe77.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/2c62a99294e372c95010b54f203d56cc6cbe77.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/17/2c62a99294e372c95010b54f203d56cc6cbe77.debug debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95/67117ab9d2db2f9845702eca330b4baccc4def.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95/67117ab9d2db2f9845702eca330b4baccc4def.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/bam2roi + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/95/67117ab9d2db2f9845702eca330b4baccc4def.debug debian/seqan-apps/usr/lib/seqan/bin/bam2roi + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16 + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16/231966408a459736e7d63ed7d0f614e1af220c.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16/231966408a459736e7d63ed7d0f614e1af220c.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/seqcons2 + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/16/231966408a459736e7d63ed7d0f614e1af220c.debug debian/seqan-apps/usr/lib/seqan/bin/seqcons2 + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c/440940496a386fc76574fb7fa2007364c17c87.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c/440940496a386fc76574fb7fa2007364c17c87.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/rep_sep + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/3c/440940496a386fc76574fb7fa2007364c17c87.debug debian/seqan-apps/usr/lib/seqan/bin/rep_sep + install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb + objcopy --only-keep-debug --compress-debug-sections debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/a2f35e1a666204ca70ffbacf1aa33f486d5545.debug + chmod 0644 -- debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/a2f35e1a666204ca70ffbacf1aa33f486d5545.debug + strip --remove-section=.comment --remove-section=.note debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining + objcopy --add-gnu-debuglink debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.build-id/eb/a2f35e1a666204ca70ffbacf1aa33f486d5545.debug debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining install -m0755 -d debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/seqan-apps/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/seqan-apps/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/seqan-apps/usr/lib/debug/.dwz @@ -315774,7 +315810,7 @@ rm -f debian/seqan-apps/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/seqan-apps/DEBIAN - dpkg-shlibdeps -Tdebian/seqan-apps.substvars debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/seqan-apps/usr/lib/seqan/bin/razers debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/seqan-apps/usr/lib/seqan/bin/sak debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/seqan-apps/usr/lib/seqan/bin/splazers debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/lib/seqan/bin/stellar debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/lib/seqan/bin/samcat debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/lib/seqan/bin/fiona debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/seqan-apps/usr/lib/seqan/bin/insegt debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/lib/seqan/bin/casbar debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/seqan-apps/usr/lib/seqan/bin/alf debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/lib/seqan/bin/four2three debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/seqan-apps/usr/lib/seqan/bin/dfi debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/seqan-apps/usr/lib/seqan/bin/bisar debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/seqan-apps/usr/lib/seqan/bin/sgip + dpkg-shlibdeps -Tdebian/seqan-apps.substvars debian/seqan-apps/usr/lib/seqan/bin/mason_frag_sequencing debian/seqan-apps/usr/lib/seqan/bin/mason_splicing debian/seqan-apps/usr/lib/seqan/bin/fiona debian/seqan-apps/usr/lib/seqan/bin/dfi debian/seqan-apps/usr/lib/seqan/bin/s4_join debian/seqan-apps/usr/lib/seqan/bin/gustaf debian/seqan-apps/usr/lib/seqan/bin/snp_store debian/seqan-apps/usr/lib/seqan/bin/sak debian/seqan-apps/usr/lib/seqan/bin/yara_indexer debian/seqan-apps/usr/lib/seqan/bin/rabema_build_gold_standard debian/seqan-apps/usr/lib/seqan/bin/sam2matrix debian/seqan-apps/usr/lib/seqan/bin/casbar debian/seqan-apps/usr/lib/seqan/bin/insegt debian/seqan-apps/usr/lib/seqan/bin/stellar debian/seqan-apps/usr/lib/seqan/bin/razers debian/seqan-apps/usr/lib/seqan/bin/mason_variator debian/seqan-apps/usr/lib/seqan/bin/tree_recon debian/seqan-apps/usr/lib/seqan/bin/fiona_illumina debian/seqan-apps/usr/lib/seqan/bin/micro_razers debian/seqan-apps/usr/lib/seqan/bin/pair_align debian/seqan-apps/usr/lib/seqan/bin/yara_mapper debian/seqan-apps/usr/lib/seqan/bin/mason_simulator debian/seqan-apps/usr/lib/seqan/bin/compute_gain debian/seqan-apps/usr/lib/seqan/bin/s4_search debian/seqan-apps/usr/lib/seqan/bin/sgip debian/seqan-apps/usr/lib/seqan/bin/mason_materializer debian/seqan-apps/usr/lib/seqan/bin/fx_bam_coverage debian/seqan-apps/usr/lib/seqan/bin/param_chooser debian/seqan-apps/usr/lib/seqan/bin/samcat debian/seqan-apps/usr/lib/seqan/bin/mason_methylation debian/seqan-apps/usr/lib/seqan/bin/mason_genome debian/seqan-apps/usr/lib/seqan/bin/rabema_prepare_sam debian/seqan-apps/usr/lib/seqan/bin/four2three debian/seqan-apps/usr/lib/seqan/bin/rabema_evaluate debian/seqan-apps/usr/lib/seqan/bin/alf debian/seqan-apps/usr/lib/seqan/bin/splazers debian/seqan-apps/usr/lib/seqan/bin/roi_plot_thumbnails debian/seqan-apps/usr/lib/seqan/bin/bisar debian/seqan-apps/usr/lib/seqan/bin/razers3 debian/seqan-apps/usr/lib/seqan/bin/roi_feature_projection debian/seqan-apps/usr/lib/seqan/bin/seqan_tcoffee debian/seqan-apps/usr/lib/seqan/bin/bam2roi debian/seqan-apps/usr/lib/seqan/bin/seqcons2 debian/seqan-apps/usr/lib/seqan/bin/rep_sep debian/seqan-apps/usr/lib/seqan/bin/gustaf_mate_joining dh_installdeb install -m0755 -d debian/seqan-apps/DEBIAN install -m0755 -d debian/libseqan2-dev/DEBIAN @@ -315793,8 +315829,8 @@ dpkg-gencontrol -pseqan-apps -ldebian/changelog -Tdebian/seqan-apps.substvars -cdebian/control -Pdebian/seqan-apps chmod 0644 -- debian/seqan-apps/DEBIAN/control dh_md5sums - install -m0755 -d debian/libseqan2-dev/DEBIAN install -m0755 -d debian/seqan-apps/DEBIAN + install -m0755 -d debian/libseqan2-dev/DEBIAN cd debian/seqan-apps >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/libseqan2-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libseqan2-dev/DEBIAN/md5sums @@ -315816,12 +315852,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1090047/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/1209357 and its subdirectories -I: Current time: Wed Sep 3 12:24:52 -12 2025 -I: pbuilder-time-stamp: 1756945492 +I: removing directory /srv/workspace/pbuilder/1090047 and its subdirectories +I: Current time: Thu Oct 8 07:27:33 +14 2026 +I: pbuilder-time-stamp: 1791394053